PaperBLAST
PaperBLAST Hits for reanno::pseudo5_N2C3_1:AO356_05495 ABC transporter for L-Lysine, periplasmic substrate-binding component (Pseudomonas fluorescens FW300-N2C3) (260 a.a., MKKALLTLSA...)
Show query sequence
>reanno::pseudo5_N2C3_1:AO356_05495 ABC transporter for L-Lysine, periplasmic substrate-binding component (Pseudomonas fluorescens FW300-N2C3)
MKKALLTLSALALCMAAGVATAKEYKELRFGVDPSYAPFESKAADGSLVGFDIDLGNAIC
AELKVKCKWVESDFDGMIPGLKANKFDGVISSMTVTPAREKVIDFSSELFSGPTAYVFKK
GSGLSEDVASLKGKTIGYEQGTIQEAYAKAVLDKAGVKTQAYQNQDQVYADLTSGRLDAA
IQDMLQAELGFLKSPKGEGYEVSKPVDSELLPAKTAIGIKKGNSELKALLDKGIKALHDD
GKYAEIQKKHFGDLNLYSGK
Running BLASTp...
Found 263 similar proteins in the literature:
AO356_05495 ABC transporter for L-Lysine, periplasmic substrate-binding component from Pseudomonas fluorescens FW300-N2C3
100% identity, 100% coverage
- mutant phenotype: Specific phenotype on L-Lysine. Note that this organism has a second ABC transporter that is also important for lysine utilization, which is not explained.
Pf6N2E2_2958 ABC transporter for L-Lysine, periplasmic substrate-binding component from Pseudomonas fluorescens FW300-N2E2
98% identity, 100% coverage
- mutant phenotype: Specific phenotype on L-Lysine; Gly-Glu. There is another dedicated transporter for the dipeptide gly-glu so the basis of that phenotype is unclear.
Q4KH87 Histidine ABC transporter, periplasmic histidine-binding protein HisJ from Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)
93% identity, 100% coverage
PSPTO4136, PSPTO_4136 amino acid ABC transporter, periplasmic amino acid-binding protein from Pseudomonas syringae pv. tomato str. DC3000
88% identity, 100% coverage
VT47_18480 transporter substrate-binding domain-containing protein from Pseudomonas syringae pv. syringae
87% identity, 100% coverage
PFLU_1311 transporter substrate-binding domain-containing protein from Pseudomonas [fluorescens] SBW25
88% identity, 100% coverage
Bmul_4902 ABC transporter substrate-binding protein from Burkholderia multivorans ATCC 17616
55% identity, 100% coverage
- Genomic editing in Burkholderia multivorans by CRISPR/Cas9
Ferreira, Applied and environmental microbiology 2024 - “...intergenic region of 813 bp between the end of the coding sequence of two genes (Bmul_4902 and Bmul_4903) convergently transcribed ( Fig. 5A ). The repair arms to be used were the region upstream (709 bp) and downstream (770 bp) of the region where Cas9 should...”
- “...of B. multivorans ATCC 17616. ( A ) Schematic representation of the intergenic region between Bmul_4902 and Bmul_4903 highlighting the place of gfp gene insertion (showed by a green triangle). Letters a/b and c/d show the position of the primers selected to confirm the insertion of...”
Bcep1808_3624 cationic amino acid ABC transporter, periplasmic binding protein from Burkholderia vietnamiensis G4
55% identity, 99% coverage
- Differential Expression and PAH Degradation: What Burkholderia vietnamiensis G4 Can Tell Us?
Cauduro, International journal of microbiology 2020 - “...from the extracellular medium to the intracellular medium. The proteins amino acid ABC transporter (Bcep1808_0095, Bcep1808_3624, Bcep1808_5570, and Bcep1808_5571), oligopeptide/dipeptide ABC transport ATPase (Bcep1808_3703, Bcep1808_3703), glycine betaine/L-proline ABC transport ATPase (Bcep1808_3472), and ABC transporter (Bcep1808_5572) were all found to have a similar function. These proteins carry...”
BCAM2618 putative periplasmic lysine-arginine-ornithine-binding protein from Burkholderia cenocepacia J2315
I35_6515 ABC transporter substrate-binding protein from Burkholderia cenocepacia H111
54% identity, 99% coverage
- The Mla Pathway Plays an Essential Role in the Intrinsic Resistance of Burkholderia cepacia Complex Species to Antimicrobials and Host Innate Components
Bernier, Journal of bacteriology 2018 - “...and BCAM2426), transport (BCAL0302, BCAL0305, and BCAM2618), lipoprotein (BCAM2620), type IV secretion system (BCAM0324), hypothetical genes, and mobile...”
- “...genes (BCAL1079 to BCAL1082, BCAL0302 to BCAL0305, and BCAM2618 to BCAM2620) and three genes with multiple insertions (BCAL0179, BCAL0305, and BCAL3252). Genes...”
- NtrC-dependent control of exopolysaccharide synthesis and motility in Burkholderia cenocepacia H111
Liu, PloS one 2017 - “...-3.0 I35_6344 BCAM2444 Conserved domain protein -4.1 I35_6461 BCAM2564 Aerotaxis sensor receptor protein -4.9 I35_6515 BCAM2618 Histidine ABC transporter, histidine-binding periplasmic protein hisJ -4.4 I35_6573 BCAM2679 Hypothetical protein -9.0 I35_6574 BCAM2680 Putative exported protein -3.6 I35_6579 Hypothetical protein -4.6 I35_7149 Hypothetical protein -3.7 I35_7282 BCAS0267a 3',5'-cyclic-nucleotide...”
- Burkholderia cenocepacia differential gene expression during host-pathogen interactions and adaptation to the host environment
O'Grady, Frontiers in cellular and infection microbiology 2011 - “...Putative phosphoglycerate/bisphosphoglycerate 1.56 BCAM2504 Conserved hypothetical protein 1.84 c BCAM2542 Fenitrothion hydrolase protein FedA 1.57 BCAM2618 Putative periplasmic 1.64 BCAM2623 Conserved hypothetical protein 2.05 c BCAM2647 Putative membrane protein 1.71 BCAM2648 NAD dependent epimerase/dehydratase family 1.61 BCAM2685 Conserved hypothetical protein 2.11 c BCAM2700 Putative membrane protein...”
- NtrC-dependent control of exopolysaccharide synthesis and motility in Burkholderia cenocepacia H111
Liu, PloS one 2017 - “...(I35_196364), several genes coding for components of ABC transporters (I35_0158, I35_4451, I35_487273, I35_522829, I35_5552, I35_5645, I35_6515, I35_710910, I35_773740), and an alanyl-alanine dipeptidase and its associated transporter (I35_564446). Moreover, other genes showed 54 NtrCdependent transcription, including cidAB (I35_328889) coding for a putative holin and anti-holin system, I35_467273...”
- “...protein -3.0 I35_6344 BCAM2444 Conserved domain protein -4.1 I35_6461 BCAM2564 Aerotaxis sensor receptor protein -4.9 I35_6515 BCAM2618 Histidine ABC transporter, histidine-binding periplasmic protein hisJ -4.4 I35_6573 BCAM2679 Hypothetical protein -9.0 I35_6574 BCAM2680 Putative exported protein -3.6 I35_6579 Hypothetical protein -4.6 I35_7149 Hypothetical protein -3.7 I35_7282 BCAS0267a...”
BPSS0269 lysine-arginine-ornithine transport system, binding exported protein from Burkholderia pseudomallei K96243
56% identity, 99% coverage
- Host-Adaptation of Burkholderia pseudomallei Alters Metabolism and Virulence: a Global Proteome Analysis
Mariappan, Scientific reports 2017 - “...2.9 33 32699/31300 9.17/9.17 + periplasmic Lysine-arginine-ornithine transport system, binding exported protein (argT) 24 0.044 BPSS0269 2.0 16 27833/28350 7.64/8.61 + periplasmic Secondary metabolites biosynthesis, transport and catabolism / General function prediction Acetyacetyl-CoA reductase (phbB) 32 0.036 BPSL1536 2.5 22 26722/26377 6.84/6.84 cytoplamic Acetoacetyl-CoA reductase (phbB)...”
- Altered Proteome of Burkholderia pseudomallei Colony Variants Induced by Exposure to Human Lung Epithelial Cells
Al-Maleki, PloS one 2015 - “...Cytoplasmic -2.28 0.02 B. Amino acid Metabolism 5 Lysine-arginine-ornithine transport system, binding exported protein (ArgT) BPSS0269 53 13 28.32/28.33 8.61/8.61 1127 + Periplasmic -2.59 0.001 C. Carbohydrate Transport and Metabolism 2 Enolase: phosphopyruvate hydratase (Eno) BPSL2270 31 13 45.65/45.55 4.81/4.81 1187 - Cytoplasmic -2.13 0.04 Cellular...”
- “...0.000 C. Amino acid Transport and Metabolism 5 Lysine-arginine-ornithine transport system, binding exported protein (ArgT) BPSS0269 53 13 28.32/28.33 8.61/8.61 1127 + Periplasmic 3.56 0.01 23 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase (DapD) BPSL2169 19 5 29.52/29.38 5.68/5.66 371 - Cytoplasmic 3.13 0.0007 D. Carbohydrate Transport and Metabolism 2 Enolase:...”
Bmul_3347 ABC transporter substrate-binding protein from Burkholderia multivorans ATCC 17616
55% identity, 99% coverage
AAU60_15185 ABC transporter substrate-binding protein from Acinetobacter johnsonii
52% identity, 96% coverage
- Genome-sequence analysis of Acinetobacter johnsonii MB44 reveals potential nematode-virulent factors
Tian, SpringerPlus 2016 - “...AAU60_01405 AAU60_08540 AAU60_10125 AAU60_01400 AAU60_08535 ABC transporter AAU60_06635 AAU60_00105 AAU60_07820 AAU60_10860 AAU60_10765 AAU60_05600 AAU60_04745 AAU60_09575 AAU60_15185 AAU60_14255 AAU60_15880 AAU60_10855 RND transporter AAU60_15305 AAU60_13180 AAU60_06585 MFS transporter AAU60_15825 AAU60_07305 AAU60_08870 AAU60_07850 AAU60_07470 AAU60_15415 Resistance Drug/multi-drug resistance AAU60_03375 AAU60_03380 AAU60_01105 AAU60_00855 a HS: predictions from both HMM (hidden...”
ABD05_RS18475 ABC transporter substrate-binding protein from Burkholderia pyrrocinia
52% identity, 86% coverage
BPHYT_RS07735 ABC transporter for L-Arginine, periplasmic substrate-binding component from Burkholderia phytofirmans PsJN
52% identity, 86% coverage
- mutant phenotype: Specific phenotype on L-Arginine. Not near the permease components
BCAS0162 periplasmic solute-binding protein from Burkholderia cenocepacia J2315
46% identity, 90% coverage
BPHY_RS37120, Bphy_7504 ABC transporter substrate-binding protein from Paraburkholderia phymatum STM815
48% identity, 96% coverage
- Metabolomics and Dual RNA-Sequencing on Root Nodules Revealed New Cellular Functions Controlled by Paraburkholderia phymatum NifA
Bellés-Sancho, Metabolites 2021 - “...2.18 BPHY_RS37205 hypothetical protein Bphy_7521 2.25 BPHY_RS37050 biosynthetic-type acetolactate synthase large subunit Bphy_7490 ilvB 2.27 BPHY_RS37120 ABC transporter substrate-binding protein Bphy_7504 2.32 BPHY_RS38545 iron-sulfur cluster assembly accessory protein Bphy_7815 2.33 BPHY_RS38560 porin Bphy_7819 2.47 BPHY_RS37795 aminotransferase class III-fold pyridoxal phosphate-dependent enzyme Bphy_7651 2.51 BPHY_RS37925 hypothetical protein...”
- “...2.25 BPHY_RS37050 biosynthetic-type acetolactate synthase large subunit Bphy_7490 ilvB 2.27 BPHY_RS37120 ABC transporter substrate-binding protein Bphy_7504 2.32 BPHY_RS38545 iron-sulfur cluster assembly accessory protein Bphy_7815 2.33 BPHY_RS38560 porin Bphy_7819 2.47 BPHY_RS37795 aminotransferase class III-fold pyridoxal phosphate-dependent enzyme Bphy_7651 2.51 BPHY_RS37925 hypothetical protein Bphy_7682 2.52 BPHY_RS37805 IS630 family...”
BCAL1065 periplasmic solute-binding protein from Burkholderia cenocepacia J2315
50% identity, 86% coverage
ARGT_SALTY / P02911 Lysine/arginine/ornithine-binding periplasmic protein; LAO-binding protein from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 6 papers)
argT / RF|NP_461297.1 lysine/arginine/ornithine ABC transporter, periplasmic lysine/arginine/ornithine-binding protein ArgT from Salmonella enterica subsp. enterica serovar Typhimurium (see 4 papers)
STM2355 ABC superfamily (bind_prot), lysine/arginine/ornithine transport protein from Salmonella typhimurium LT2
NP_461297 lysine/arginine/ornithine transport protein from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
STM14_2901 lysine/arginine/ornithine ABC transporter substrate-binding protein ArgT from Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
46% identity, 99% coverage
- function: Part of the ABC transporter complex HisPMQ-ArgT involved in lysine/arginine/ornithine transport (PubMed:24021237). Binds lysine, arginine and ornithine (PubMed:1400387, PubMed:6273842, PubMed:7929349, PubMed:8496186). Can also bind histidine, with much lower affinity (PubMed:1400387, PubMed:7929349). Stimulates ATPase activity of HisP (PubMed:24021237).
subunit: The complex is composed of two ATP-binding proteins (HisP), two transmembrane proteins (HisM and HisQ) and a solute-binding protein (ArgT). - Modulating Salmonella Typhimurium's Response to a Changing Environment through Bacterial Enhancer-Binding Proteins and the RpoN Regulon
Hartman, Frontiers in molecular biosciences 2016 - “...TGGTGCA Low intracellular glutamine STM1303-07 astCABDE Arginine/ornithine/glutamine matabolism NtrC TGCACC(A/T) 4 TGGTGCA Low intracellular glutamine STM2355 argT Lysine/arginine/ornithine transport protein NtrC TGCACC(A/T) 4 TGGTGCA Low intracellular glutamine STM4007-05 glnALG Glutamine synthetase NtrC TGCACC(A/T) 4 TGGTGCA Low intracellular glutamine STM0577-72 ----- Putative PTS STM0571 NK NK STM0649-51...”
- Use of a promiscuous, constitutively-active bacterial enhancer-binding protein to define the σ⁵⁴ (RpoN) regulon of Salmonella Typhimurium LT2
Samuels, BMC genomics 2013 - “...PrpR 45 [ 4 ] STM0830-28 glnHPQ Glutamine high-affinity transporter NtrC 7.1 [ 27 ] STM2355 argT Lysine/arginine/ornithine transport protein NtrC 3.5 [ 2 ] STM_R0152 glmY GlmY sRNA GlrR 0.9 [ 28 ] STM_R0167 glmZ GlmZ sRNA GlrR 1.1 [ 28 ] STM4007-05 glnALG Glutamine...”
- “...astC 4.0 + 21.7 1382105 1382122 TGGCACGAATGCTGCAAT STM1690 pspA 23 + 20.3 1782486 1782469 TGGCACGCAAATTGTATT STM2355 argT 3.5 + 16.2 2466359 2466376 TGGCATAAGACCTGCATG STM2360 4.8 + 23.6 2472731 2472714 TGGCATGCCTTTTGCTTT STM_R0152 glmY 31 + 20.6 2707874 2707857 TGGCACAATTACTGCATA STM2809 proV 9.5 - 14.6 2955839 2955822 TGGCATGAATATTGCGAG...”
- Cationic amino acid transporters and Salmonella Typhimurium ArgT collectively regulate arginine availability towards intracellular Salmonella growth.
Das, PloS one 2010 - GeneRIF: Cationic amino acid transporters and Salmonella Typhimurium ArgT collectively regulate arginine availability towards intracellular Salmonella growth
- Molecular dynamics simulations of ligand-induced backbone conformational changes in the binding site of the periplasmic lysine-, arginine-, ornithine-binding protein.
Yang, Journal of computer-aided molecular design 2008 (PubMed)- GeneRIF: A conformational change is induced by the binding of ornithine, leading to the stabilization of an energetically favorable alternative conformation.
- Utilizing nutrient type compounds as anti-bacterial compounds: arginine and cysteine inhibit Salmonella survival in egg white
Ben-Porat, Frontiers in bioengineering and biotechnology 2024 - “...operon STM14_0805 citB citrate utilization protein b 12.11 0.00003 0.01636 Near statistical significance Arginine transport STM14_2901 argT lysine/arginine/ornithine transport protein 4.87 0.02455 0.21751 Arginine metabolism related STM14_4955 argE acetylornithine deacetylase 5.89 0.00097 0.07678 STM14_0817 potE putrescine transporter 8.07 0.00056 0.07678 STM14_1402 potB spermidine/putrescine ABC transporter membrane...”
- Novel DNA Binding and Regulatory Activities for σ54 (RpoN) in Salmonella enterica Serovar Typhimurium 14028s
Bono, Journal of bacteriology 2017 - “...STM14_0964 STM14_1558 STM14_1582h STM14_2040 STM14_2900h STM14_2901 STM14_2907 STM14_3143.Ph STM14_3431 STM14_3436 STM14_3448 STM14_3450 STM14_4239 STM14_4295...”
- “...presence of lysine (48). The 54-dependent gene argT (STM14_2901), which codes for a lysine/arginine/ornithine transport protein, is highly expressed in the WT...”
t0509 lysine-arginine-ornithine-binding periplasmic protein precursor from Salmonella enterica subsp. enterica serovar Typhi Ty2
46% identity, 99% coverage
NJ56_RS11560 histidine ABC transporter substrate-binding protein HisJ from Yersinia ruckeri
45% identity, 99% coverage
BCAL0051 periplasmic solute-binding protein from Burkholderia cenocepacia J2315
46% identity, 94% coverage
PA14_26240 periplasmic histidine-binding protein HisJ from Pseudomonas aeruginosa UCBPP-PA14
46% identity, 89% coverage
PA2923 periplasmic histidine-binding protein HisJ from Pseudomonas aeruginosa PAO1
46% identity, 89% coverage
ArgT / b2310 lysine/arginine/ornithine ABC transporter periplasmic binding protein (EC 7.4.2.1) from Escherichia coli K-12 substr. MG1655 (see 6 papers)
TC 3.A.1.3.1 / TC 3.A.1.3.29 / P09551 ArgT aka B2310, component of Histidine/Arginine/Lysine (basic amino acid) uptake porter, HisJ/ArgT/HisP/HisM/HisQ [R, R, C, M, M, respectively] (Gilson et al. 1982). HisJ binds L-His (preferred), but 1-methyl-L-His and 3-methyl-L-His also bind, while the dipeptide carnosine binds weakly; D-histidine and the histidine degradation products, histamine, urocanic acid and imidazole do not bind. L-Arg, homo-L-Arg, and post-translationally modified methylated Arg-analogs also bind with the exception of symmetric dimethylated-L-Arg. L-Lys and L-Orn show weaker interactions with HisJ and methylated and acetylated Lys variants show poor binding.The carboxylate groups of these amino acids and their variants are essential from Escherichia coli (see 5 papers)
NP_416813 lysine/arginine/ornithine ABC transporter periplasmic binding protein from Escherichia coli str. K-12 substr. MG1655
b2310 lysine/arginine/ornithine transporter subunit from Escherichia coli str. K-12 substr. MG1655
45% identity, 99% coverage
- substrates: Arginine, Histidine, Ornithine, lysine
tcdb comment: ligands only one substrate molecule in between its two transmembrane subunits, HisM and HisQ (Heuveling et al. 2019) - The hisT-purF region of the Escherichia coli K-12 chromosome. Identification of additional genes of the hisT and purF operons.
Nonet, The Journal of biological chemistry 1987 (PubMed)- GeneRIF: N-terminus verified by Edman degradation on mature peptide
- Altered conformational sampling along an evolutionary trajectory changes the catalytic activity of an enzyme.
Kaczmarski, Nature communications 2020 - “...(11), 5TUJ (11), 5JOS (11) and 6WUP (11). Materials The genes encoding Se LAOBP (UniProt: P09551), AncCDT-1, AncCDT-3/P188, AncCDT-3/L188, AncCDT-5 and Pa CDT (UniProt: Q01269, residues 26268) in pDOTS7 vectors (a derivative of pQE-28L, Qiagen) were obtained from previous work 32 , 40 (DNA sequences supplied...”
- Energetics-based protein profiling on a proteomic scale: identification of proteins resistant to proteolysis
Park, Journal of molecular biology 2007 - “...P04790 tpiA 255 27.0 5.64 10 P02925 rbsB 271 28.5 5.99 11 P09551 argT 238 25.8 5.22 12 P12758 udp 252 27.0 5.81 13 P12758 udp 252 27.0 5.81 14 P75743 ybgI 247...”
- “...P02925 rbsB 271 28.5 5.99 22 P00882 deoC 259 27.7 5.50 23 P09551 argT 238 25.8 5.22 24 P30859 artI 224 25.0 5.32 25 P04790 tpiA 255 27.0 5.64 26 P32697 aphA 212...”
- The Escherichia coli proteome: past, present, and future prospects
Han, Microbiology and molecular biology reviews : MMBR 2006 - “...(5-6) 5.43/39,776 5.32/64,682.96 5.32/60,405 ArgT P09551 5.22/25,784.99 5.15/26,055 (DIGE 4.5-6.5) 5.17/26,881 (4.5-5.5) Descriptionb Theoreticalc 4-...”
- RNA stability is regulated by both RNA polyadenylation and ATP levels, linking RNA and energy metabolisms in <i>Escherichia coli</i>
Roux, mBio 2025 - “...NA aceE b0114 Pyruvate dehydrogenase Energy production and conversion 2664 Yes 494 2.3 Cytosol argT b2310 Lysine/arginine/ornithine ABC transporter periplasmic binding protein Amino acid transport and metabolism 783 Yes 31 2.6 Periplasmic space zapB b3928 Cell division factor ZapB (Z-ring) Function unknown 246 No 50 1.7...”
- A systems approach discovers the role and characteristics of seven LysR type transcription factors in Escherichia coli
Rodionova, Scientific reports 2022 - “...2.5 b2373 oxc Oxalyl-CoA decarboxylase 0.00095 11 2.1 b4660_1 yhiL Uncharacterized protein 0.000401 28 2.0 b2310 argT Lysine/arginine/ornithine ABC transporter periplasmic binding protein 0.000795 761 1.8 b2349 intS CPS-53 (KpLE1) prophage prophage CPS-53 integrase 0.000511 101 1.6 b3043 ygiL Putative fimbrial protein YgiL 0.00100 10 1.6...”
- Genome-Scale Mapping of Escherichia coli σ54 Reveals Widespread, Conserved Intragenic Binding
Bonocora, PLoS genetics 2015 - “...b2221 atoD 35 9.39 C OS22 2425886 12 A TGGC ATAAGACC TGC A 2425890 - b2310 argT 58 9.457 P OS23 2599175 16 A TGGC ATCCTTTA TGC A 2599173 + b2481 hyfA 31 10.524 C OS24 2689367 200 T TGGC ACAGTTAC TGC A 2689382 - b4441...”
- Evolutionary dynamics of small RNAs in 27 Escherichia coli and Shigella genomes
Skippington, Genome biology and evolution 2012 - “...gltI b0655 gcvB 26 Variable Incongruent Yes dppA b3544 gcvB 25 Variable Incongruent No argT b2310 gcvB 25 Variable Incongruent No sstT b3089 gcvB 27 Core Incongruent Yes oppA b1243 gcvB 27 Core Incongruent No gltL b0652 gcvB 26 Variable Incongruent No livK b3458 gcvB 27...”
- Time-dependent translational response of E. coli to excess Zn(II)
Easton, Journal of biomolecular techniques : JBT 2006 (secret) - Sulfur and nitrogen limitation in Escherichia coli K-12: specific homeostatic responses
Gyaneshwar, Journal of bacteriology 2005 - “...genes regulated by NtrC/Nac (b0652, b0653, b2309, and b2310), three trp biosynthetic genes (b1260, b1261, and b1263), and six arg biosynthetic genes (b2818,...”
- Stationary-phase quorum-sensing signals affect autoinducer-2 and gene expression in Escherichia coli
Ren, Applied and environmental microbiology 2004 - “...b2393 5.3 phoB b0399 4.5 phoU b3724 4.4 argT b2310 4.2 ompF b0929 3.8 phoA b0383 2.7 a Description Transport of small molecules: nucleosides, purines,...”
- “...b0399 35.7 nupC b2393 8.8 phoU b3724 6.5 phoR argT b0400 b2310 5.6 5 nlpC dsdX gltB ompF guaC phoE bcr b1708 b2365 b3212 b0929 b0104 b0241 b2182 4.5 4.4 3.4 3.3...”
- Physiological studies of Escherichia coli strain MG1655: growth defects and apparent cross-regulation of gene expression
Soupene, Journal of bacteriology 2003 - “...to b1784), yedL (b1932), cbl (b1987), nac (b1988), argT (b2310), ygjG (b3073), and glnALG (b3868 to b3870). See text for discussion of other differences in...”
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FPV33_RS07020 lysine/arginine/ornithine ABC transporter substrate-binding protein ArgT from Klebsiella aerogenes
44% identity, 99% coverage
1lafE / P02911 Structural bases for multiple ligand specificity of the periplasmic lysine-, arginine-, ornithine-binding protein (see paper)
47% identity, 89% coverage
BC33_RS10385 lysine/arginine/ornithine ABC transporter substrate-binding protein ArgT from Escherichia coli ATCC 700728
Z3572 tRNA-Arg from Escherichia coli O157:H7 EDL933
ECs3194 lysine-, arginine-, ornithine-binding periplasmic protein from Escherichia coli O157:H7 str. Sakai
45% identity, 99% coverage
y1607 histidine-binding periplasmic protein of high-affinity histidine transport system from Yersinia pestis KIM
45% identity, 66% coverage
YPK_1538 cationic amino acid ABC transporter, periplasmic binding protein from Yersinia pseudotuberculosis YPIII
45% identity, 89% coverage
- Genome-Scale Mapping Reveals Complex Regulatory Activities of RpoN in Yersinia pseudotuberculosis
Mahmud, mSystems 2020 - “...CTGGCATGAGTCGTGCTC 10.08 24,54,70 YPK_1333 29, 70 IGS7 1700633 7.4 4.9 9.7 CTGGCACGATTACTGCAA + 10.75 54,70 YPK_1538 69 IGS8 1770585 5.9 4.4 7.3 CTGGCACGATCTTTTCAT 10.32 70,54 YPK_1600 E,S 23 IGS9 2092867 16.8 8.4 6.5 TGGGCACGCATTTTGCCT 10.54 70,28,54 YPK_1886 28, 127 IGS10 2101765 16.5 15.0 13.5 TTGGCACGACTCTTGATT +...”
Pf1N1B4_3431 ABC transporter for L-Arginine and L-Citrulline, periplasmic substrate-binding component from Pseudomonas fluorescens FW300-N1B4
42% identity, 96% coverage
- mutant phenotype: Specific phenotype on L-Arginine; L-Citrulline.
BTH_I3294 lysine-arginine-ornithine-binding periplasmic protein from Burkholderia thailandensis E264
45% identity, 88% coverage
AO356_18700 L-Arginine ABC transporter, periplasmic substrate-binding component from Pseudomonas fluorescens FW300-N2C3
42% identity, 96% coverage
- mutant phenotype: Specific phenotype on L-Arginine.
Pf6N2E2_5660 L-Arginine ABC transporter, periplasmic substrate-binding component from Pseudomonas fluorescens FW300-N2E2
41% identity, 96% coverage
- mutant phenotype: Specific phenotype on L-Arginine.
PFLCHA0_RS22950 ABC transporter substrate-binding protein from Pseudomonas protegens CHA0
42% identity, 98% coverage
- Experimental-Evolution-Driven Identification of Arabidopsis Rhizosphere Competence Genes in Pseudomonas protegens
Li, mBio 2021 - “...0 PFLCHA0_RS22600 gacS Hybrid sensor histidine kinase/response regulator T 3 1 1 0 0 0 PFLCHA0_RS22950 argT5 ABC transporter substrate-binding protein/lysine-arginine-ornithine-binding periplasmic protein ArgT ET 4 1 0 0 1 0 PFLCHA0_RS25175 mraZ Division/cell wall cluster transcriptional repressor MraZ K 2 1 0 0 0 1...”
- “...G27D 1/6 4/6 3.8% 19.9% 75.6% x 3 PFLCHA0_RS31060 nlpD c.590A>C p.Gln197Pro Q197P 1/6 4 PFLCHA0_RS22950 argT5 c.120-533del p.Lys40-Leu185del.fsX6 argT5 2/6 4 PFLCHA0_RS02080 hutI c.786C>T p.Phe262Phe 786C>T 1/6 4 PFLCHA0_RS17965 gacA c.-40T>A NA -40T>A 2/6 1/4 4 PFLCHA0_RS17965 gacA c.112G>T p.E38X E38X 2/6 3/4 4 PFLCHA0_RS05510...”
BPHY_RS37070, Bphy_7494 ABC transporter substrate-binding protein from Paraburkholderia phymatum STM815
43% identity, 94% coverage
- Metabolomics and Dual RNA-Sequencing on Root Nodules Revealed New Cellular Functions Controlled by Paraburkholderia phymatum NifA
Bellés-Sancho, Metabolites 2021 - “...transposase Bphy_7402 6.22 BPHY_RS37965 class I SAM-dependent methyltransferase Bphy_7688 6.25 BPHY_RS36055 cysteine hydrolase Bphy_7270 6.29 BPHY_RS37070 ABC transporter substrate-binding protein Bphy_7494 6.33 BPHY_RS40990 IS5/IS1182 family transposase Bphy_7635 6.34 BPHY_RS37100 aminopeptidase P family protein Bphy_7500 6.59 BPHY_RS38155 nitrogen fixation protein Bphy_7734 nifQ 6.59 BPHY_RS35995 [NiFe]-hydrogenase assembly, chaperone...”
- “...I SAM-dependent methyltransferase Bphy_7688 6.25 BPHY_RS36055 cysteine hydrolase Bphy_7270 6.29 BPHY_RS37070 ABC transporter substrate-binding protein Bphy_7494 6.33 BPHY_RS40990 IS5/IS1182 family transposase Bphy_7635 6.34 BPHY_RS37100 aminopeptidase P family protein Bphy_7500 6.59 BPHY_RS38155 nitrogen fixation protein Bphy_7734 nifQ 6.59 BPHY_RS35995 [NiFe]-hydrogenase assembly, chaperone Bphy_7258 hybE 6.61 BPHY_RS41545 FAD-dependent...”
ARGBP_PSEAE / G3XD47 L-arginine-binding protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see 3 papers)
TC 3.A.1.3.11 / O50181 AotJ aka PA0888, component of Arginine/ornithine (but not lysine) porter from Pseudomonas aeruginosa (see 2 papers)
PA0888 arginine/ornithine binding protein AotJ from Pseudomonas aeruginosa PAO1
43% identity, 87% coverage
- function: Binds L-arginine with high affinity. Shows no measurable affinity for L-ornithine.
disruption phenotype: Deletion of the aotJQMOP genes greatly reduces arginine and ornithine uptake (PubMed:9791103). Disruption mutant has a reduced capacity to use arginine and ornithine as sole carbon source for growth (PubMed:18833300). - substrates: Arginine, Ornithine
- Distinct transcriptome and traits of freshly dispersed <i>Pseudomonas aeruginosa</i> cells
Kalia, mSphere 2024 - “...Upregulated 0.129716 PA0729.1 tRNA-Gly Upregulated 0.784979 Upregulated 1.081866 PA0833 Hypothetical protein Upregulated 0.927836 Upregulated 1.258061 PA0888 aotJ-arginine/ornithine binding protein AotJ Upregulated 0.842525 Upregulated 0.372018 PA0889 aotQ-arginine/ornithine transport protein AotQ Upregulated 1.193255 Upregulated 0.246144 PA0898 aruD-sucinylglutamate 5-semialdehyde dehydrogenase Upregulated 1.097161 Upregulated 0.371946 PA0916 Conserved hypothetical protein Upregulated...”
- Determination of Ligand Profiles for Pseudomonas aeruginosa Solute Binding Proteins
Fernández, International journal of molecular sciences 2019 - “...protein ( Table 1 ). 2.5. Proteins Predicted to Bind Amino Acids Protein levels of PA0888 (AotJ) and PA1074 (BraC) were increased in a highly virulent P. aeruginosa strain as compared to less virulent strains indicating that these proteins may be potential virulence determinants [ 52...”
- “...encode a transporter for L-arginine and L-ornithine [ 53 ]. Growth experiments showed that the PA0888 mutant had a reduced capacity to use both compounds as sole C-source for growth [ 36 ]. Initial thermal shift experiments with purified PA0888 did not show any binding. We...”
- Contribution of the Twin Arginine Translocation system to the exoproteome of Pseudomonas aeruginosa
Ball, Scientific reports 2016 (no snippet) - Mep72, a metzincin protease that is preferentially secreted by biofilms of Pseudomonas aeruginosa
Passmore, Journal of bacteriology 2015 - “...potF5 Probable periplasmic spermidine/putrescine-binding protein 33.9 PA1493 960 cysP Sulfate-binding protein of ABC transporter 6.4 PA0888 1469 aotJ Arginine/ornithine binding protein AotJ 17.9 1480 14.1 PA1342 1155 Probable lysine/arginine/ornithine-binding protein 9.9 Known virulence factors PA0423 1765 pasP P. aeruginosa small protease PASP 5.2 PA1871 1687 lasA...”
- A theoretical and experimental proteome map of Pseudomonas aeruginosa PAO1
Lecoutere, MicrobiologyOpen 2012 - “...phhB Pterin alpha carbinolamine dehydratase H C 13.3 12 5.94 5.96 0.607 0.336 23 * PA0888 aotJ Arginine/ornithine-binding protein ET P 28.0 28 6.43 5.31 0.715 0.203 24 PA0895 aruC N succinylglutamate semialdehyde dehydrogenase E C 43.7 42 5.63 5.61 0.706 0.087 25 PA0932 cysM Cysteine...”
- Analysis of the Pseudomonas aeruginosa regulon controlled by the sensor kinase KinB and sigma factor RpoN
Damron, Journal of bacteriology 2012 - “...PA4922 PA5556 PA2300 PA4385 PA4761 PA0766 PA1342 PA0888 PA1092 PA1159 PA0456 PA4315 PA0852 PA4238 PA5171 Conserved hypothetical protein Hypothetical protein...”
- Lipotoxin F of Pseudomonas aeruginosa is an AlgU-dependent and alginate-independent outer membrane protein involved in resistance to oxidative stress and adhesion to A549 human lung epithelia
Damron, Microbiology (Reading, England) 2009 - “...(GroEL) PA2952 (EtfB) PA4244 (RplO) PA3686 (Adk) PA0962 PA3611 PA0888 (AotJ) PA3021 PA0329 PA2743 (InfC) PA0456 PA0981 PA1804 (HupB) 10.7 8.8 8.6 8.3 7.8 7.2...”
- High-throughput phenotypic characterization of Pseudomonas aeruginosa membrane transport genes
Johnson, PLoS genetics 2008 - “...transporter PA0789 PAK proline APC family transporter PA0866 PAK aromatic amino acid APC family transporter PA0888 PAK pili- arginine/ornithine ABC transporter periplasmic binding protein ( AotJ ) PA0889 PA01 arginine/ornithine ABC transporter membrane protein ( AotQ ) PA0890 PAK arginine/ornithine ABC transporter membrane protein ( AotM...”
- “...amino acid APC family transporter Histamine N - PA0783 proline/sodium transporter L-Proline - C+N - PA0888 arginine/ornithine ABC transporter periplasmic binding protein ( AotJ ) L-Arginine C - L-Ornithine C - PA0889 arginine/ornithine ABC transporter membrane protein ( AotQ ) L-Arginine C +/ L-Ornithine C +/...”
- More
- Adsorption of extracellular proteases and pyocyanin produced by Pseudomonas aeruginosa using a macroporous magnesium oxide-templated carbon decreases cytotoxicity
Hirakawa, Current research in microbial sciences 2022 - “...Outer membrane porin F (OprF) 126.26 8.62.E+07 1.23.E+08 Q9I2F8 D-Ribose/D-allose-binding protein (RbsB) 120.15 6.37.E+06 4.19.E+07 G3XD47 Arginine/ornithine binding protein (AotJ) 107.83 2.10.E+07 2.55.E+07 Q9I4Y4 Pyocin S5 (PyoS5) 106.84 3.93.E+07 0.00.E+00 Q9HTM5 Uncharacterized protein (PA5330) 101.42 4.72.E+07 3.21.E+07 Q9HZQ8 Aminopeptidase (Lap) 99.454 7.51.E+07 0.00.E+00 Q9I3D1 Dihydrolipoyl dehydrogenase...”
- A Shaving Proteomic Approach to Unveil Surface Proteins Modulation of Multi-Drug Resistant Pseudomonas aeruginosa Strains Isolated From Cystic Fibrosis Patients
Montemari, Frontiers in medicine 2022 - “...protein 0.01 Q06062 algF Alginate biosynthesis protein AlgF Periplasmic 0.01 Q06749 algL Alginate lyase 100 G3XD47 aotJ Arginine/ornithine binding protein AotJ 0.344 Q9I2F8 rbsB Binding protein component of ABC ribose transporter 100 pae02030 Bacterial chemotaxis Q9HV60 PA4739 BON domain-containing protein 0.134 Q59635 katB Catalase 0.01 Q9I6M0...”
AO353_03055 ABC transporter for L-Arginine and L-Citrulline, periplasmic substrate-binding component from Pseudomonas fluorescens FW300-N2E3
41% identity, 98% coverage
- mutant phenotype: Specific phenotype on L-Arginine; L-Citrulline.
PS417_21745 ABC transporter for L-Arginine, substrate-binding component from Pseudomonas simiae WCS417
42% identity, 98% coverage
- mutant phenotype: Specific phenotype on L-Arginine. The ATPase component of this system is not clear. PS417_21725 is nearby and similar to aotP, but has no phenotype on arginine. It might be redundant with another ATPase? ()
1hslA / P0AEU0 Refined 1.89 angstroms structure of the histidine-binding protein complexed with histidine and its relationship with many other active transport(slash)chemosensory receptors (see paper)
42% identity, 90% coverage
- Ligand: histidine (1hslA)
HISJ_SALTY / P02910 Histidine-binding periplasmic protein; HBP from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 4 papers)
hisJ / GB|AAV76512.1 histidine ABC transporter, periplasmic histidine-binding protein HisJ from Salmonella enterica subsp. enterica serovar Typhimurium (see 5 papers)
STM2354 ABC superfamily (bind_prot), histidine transport protein from Salmonella typhimurium LT2
42% identity, 90% coverage
- function: Part of the ABC transporter complex HisPMQJ involved in histidine transport (PubMed:7050725, PubMed:9520394, PubMed:9873010). Binds histidine (PubMed:9520394, PubMed:9873010). Interacts with HisQMP and stimulates ATPase activity of HisP, which results in histidine translocation (PubMed:9520394, PubMed:9873010). May have some additional function(s) in translocation that is independent of the stimulation of ATP hydrolysis (PubMed:9873010).
subunit: The complex is composed of two ATP-binding proteins (HisP), two transmembrane proteins (HisM and HisQ) and a solute-binding protein (HisJ). - Novel DNA Binding and Regulatory Activities for σ54 (RpoN) in Salmonella enterica Serovar Typhimurium 14028s
Bono, Journal of bacteriology 2017 - “...STM0649.Sf STM0665f STM0830f STM1285f STM1303f STM1690f STM2354 STM2355f STM2360f STM_R0152f STM2840f STM2843f STM2853f STM2854f STM3521f STM3568f STM3772f...”
- N-dodecanoyl-homoserine lactone influences the levels of thiol and proteins related to oxidation-reduction process in Salmonella
de, PloS one 2018 - “...tufA Translation -3.968 1.957 2.390 2.077 -0.543 0.598 -0.425 0.147 -0.140 0.096 Histidine-binding periplasmic protein P02910 hisJ Transport -9.017 1.957 -1.073 0.737 -0.934 0.522 9.351 1.331 0.646 0.920 PTS system glucose-specific EIIA component P0A283 crr Transport -0.304 0.841 -2.267 3.151 -1.073 1.822 -0.399 1.485 0.063 0.257...”
- Escherichia coli fliAZY operon
Mytelka, Journal of bacteriology 1996 - “...S. typhimurium periplasmic histidine-binding protein (SWISS-PROT P02910). ArgT is the Lysine-Arginine-Ornithine binding protein from S. typhimurium (SWISS-PROT...”
YP_001006291 amino acid-binding periplasmic protein precursor from Yersinia enterocolitica subsp. enterocolitica 8081
43% identity, 97% coverage
PA3865 probable amino acid binding protein from Pseudomonas aeruginosa PAO1
Q9HXE1 Probable amino acid binding protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
40% identity, 90% coverage
- Agronomic efficiency and genome mining analysis of the wheat-biostimulant rhizospheric bacterium Pseudomonas pergaminensis sp. nov. strain 1008T
Díaz, Frontiers in plant science 2022 - “...): we identified functional homologs of S-pyocins of the pys1 (for a colicin-like rRNAse) and PA3865 (for a tRNAse) types, as well as two copies of putative CDI toxins related to PA0041 and PA2462 proteins from P. aeruginosa , and three copies of a gene encoding...”
- A Shaving Proteomic Approach to Unveil Surface Proteins Modulation of Multi-Drug Resistant Pseudomonas aeruginosa Strains Isolated From Cystic Fibrosis Patients
Montemari, Frontiers in medicine 2022 - “...Q9HTR2 pchP Phosphorylcholine phosphatase 0.01 0.01 Q9HY16 potD Polyamine transport protein PotD 0.01 0.01 Q9HXE1 PA3865 Probable amino acid binding protein 0.01 Q9HZ48 PA3190 Probable binding protein component of ABC sugar transporter 4.538 Q9HU87 PA5096 Probable binding protein component of ABC transporter 100 Q9HUA7 PA5076 Probable...”
- Global reprogramming of virulence and antibiotic resistance in Pseudomonas aeruginosa by a single nucleotide polymorphism in elongation factor, fusA1
Maunders, The Journal of biological chemistry 2020 (secret) - The ABC of Biofilm Drug Tolerance: the MerR-Like Regulator BrlR Is an Activator of ABC Transport Systems, with PA1874-77 Contributing to the Tolerance of Pseudomonas aeruginosa Biofilms to Tobramycin
Poudyal, Antimicrobial agents and chemotherapy 2018 - “...ABC-type uncharacterized transport system, ATPase component PA3865 PA3865 Probable transporter activity PA3888-91 PA3888 PA3889 PA3890 PA3891 PA4142-44 PA4142...”
- “...abundance of the PA1633, PA3400 or PA3402, PA3836, PA3865, PA3888, PA4142, and PA5503 transcripts in biofilms formed by PAO1/pMJT-brlR but the reduced abundance...”
- Prevention of siderophore- mediated gut-derived sepsis due to P. aeruginosa can be achieved without iron provision by maintaining local phosphate abundance: role of pH
Romanowski, BMC microbiology 2011 - “...-2.13 Carbamate kinase (EC 2.7.2.2) Arginine deiminase pathway PA0530 -2.49 Acetylornithine aminotransferase (EC 2.6.1.11) Arginine_Biosynthesis_extended PA3865 -2.74 Arginine/ornithine ABC transporter, periplasmic arginine/ornithine binding protein Arginine deiminase pathway PA1540 -2.14 Spermidine export protein mdtI Small_Multidrug_Resistance PA1541 -3.44 Spermidine export protein mdtJ Small_Multidrug_Resistance PA0509 nirN -3.39 Nitrite reductase...”
- Arginine racemization by coupled catabolic and anabolic dehydrogenases
Li, Proceedings of the National Academy of Sciences of the United States of America 2009 - “...6006 233 Plasmid (promoter) PA3862 dauB PA3863 dauA PA3864 dauR PA3865 dauT Group II: The AST pathway 199 80 185 173 9209 3247 2194 4840 pZY4 (dauT) (7) PA0895...”
- “...From DNA microarray analysis, a 4-gene locus (PA3862 to PA3865 of the annotated genome project) of unknown functions was found highly inducible by D-arginine in...”
- High-throughput phenotypic characterization of Pseudomonas aeruginosa membrane transport genes
Johnson, PLoS genetics 2008 - “...PAK alanine/sodium symporter PA3760 PAK N-Acetyl-D-Glucosamine acphosphotransferase system transporter PA3761 PAK N-Acetyl-D-Glucosamine phosphotransferase system transporter PA3865 PAK arginine/ornithine ABC transporter periplasmic binding protein PA3889 PAK glycine ABC transporter periplasmic binding protein PA4023 PAK ethanolamine APC family transporter PA4072 PAK amino acid APC family transporter PA4096 PAK...”
- Functional genomics enables identification of genes of the arginine transaminase pathway in Pseudomonas aeruginosa
Yang, Journal of bacteriology 2007 - “...of promoter fusions of PA1421 (gbuA), PA2862 (lipA), PA3865, PA4980, and PA5304 (dadA). DNA fragments containing the regulatory regions of interest were...”
- “...and 5-CTTCTTCATGTTGTTC TCATCTCAGGTTGA-3; for PA3865, 5-AGCAAGCTTCCCCCATTACAG ACGCGCCTC-3 and 5-GGTGTTCAGCGACTTGATCATGGACGACTC3; for PA4980,...”
- Proteome-wide identification of druggable targets and inhibitors for multidrug-resistant <i>Pseudomonas aeruginosa</i> using an integrative subtractive proteomics and virtual screening approach
Vemula, Heliyon 2025 - A Shaving Proteomic Approach to Unveil Surface Proteins Modulation of Multi-Drug Resistant Pseudomonas aeruginosa Strains Isolated From Cystic Fibrosis Patients
Montemari, Frontiers in medicine 2022 - “...100 Q9HTR2 pchP Phosphorylcholine phosphatase 0.01 0.01 Q9HY16 potD Polyamine transport protein PotD 0.01 0.01 Q9HXE1 PA3865 Probable amino acid binding protein 0.01 Q9HZ48 PA3190 Probable binding protein component of ABC sugar transporter 4.538 Q9HU87 PA5096 Probable binding protein component of ABC transporter 100 Q9HUA7 PA5076...”
PSPTO_1826 arginine/ornithine ABC transporter, periplasmic arginine/ornithine-binding protein from Pseudomonas syringae pv. tomato str. DC3000
42% identity, 98% coverage
PA14_13990 putative amino acid ABC transporter from Pseudomonas aeruginosa UCBPP-PA14
40% identity, 90% coverage
- Specific and Global RNA Regulators in <i>Pseudomonas aeruginosa</i>
Pusic, International journal of molecular sciences 2021 - “...i nduced RNA I) was identified in the intergenic region between the genes PA14_13970 and PA14_13990 in strain PA14 [ 131 ]. It was shown to be abundant under anoxic conditions, and rapidly degraded upon a shift to aerobic conditions [ 131 ]. PaiI transcription is...”
- The Anaerobically Induced sRNA PaiI Affects Denitrification in Pseudomonas aeruginosa PA14
Tata, Frontiers in microbiology 2017 - “...all putative sRNAs, the sRNA candidate PA14_13970.1 located in the intergenic region between PA14_13970 and PA14_13990 ( http://www.pseudomonas.com/ ) was most abundant in A-30 and B-96 conditions when compared with condition P (Figure 1 , Supplementary Figure S2A ). The putative sRNA was found to be...”
- “...In strain PA14, the paiI gene is situated in the intergenic region between PA14_13970 and PA14_13990 (Supplementary Figure S2A ), which encodes a putative transposase and a component of a putative ABC transporter, respectively (Zhang et al., 2000 ). While the synteny of paiI and PA14_13990...”
HisJ / b2309 histidine ABC transporter periplasmic binding protein (EC 7.4.2.1) from Escherichia coli K-12 substr. MG1655 (see 5 papers)
HISJ_ECOLI / P0AEU0 Histidine-binding periplasmic protein; HBP from Escherichia coli (strain K12) (see paper)
TC 3.A.1.3.29 / P0AEU0 Histidine-binding periplasmic protein, component of Histidine/Arginine/Lysine (basic amino acid) uptake porter, HisJ/ArgT/HisP/HisM/HisQ [R, R, C, M, M, respectively] (Gilson et al. 1982). HisJ binds L-His (preferred), but 1-methyl-L-His and 3-methyl-L-His also bind, while the dipeptide carnosine binds weakly; D-histidine and the histidine degradation products, histamine, urocanic acid and imidazole do not bind. L-Arg, homo-L-Arg, and post-translationally modified methylated Arg-analogs also bind with the exception of symmetric dimethylated-L-Arg. L-Lys and L-Orn show weaker interactions with HisJ and methylated and acetylated Lys variants show poor binding.The carboxylate groups of these amino acids and their variants are essential from Escherichia coli (strain K12)
hisJ / GB|AAC75369.1 histidine ABC transporter, periplasmic histidine-binding protein HisJ from Escherichia coli (see 7 papers)
BC33_RS10390 histidine ABC transporter substrate-binding protein HisJ from Escherichia coli ATCC 700728
NP_416812 histidine ABC transporter periplasmic binding protein from Escherichia coli str. K-12 substr. MG1655
b2309 histidine/lysine/arginine/ornithine transporter subunit from Escherichia coli str. K-12 substr. MG1655
c2851 Histidine-binding periplasmic protein precursor from Escherichia coli CFT073
Z3571 histidine-binding periplasmic protein of high-affinity histidine transport system from Escherichia coli O157:H7 EDL933
41% identity, 90% coverage
- function: Part of the ABC transporter complex HisPMQJ involved in histidine transport (By similarity). Binds histidine (By similarity). Interacts with HisQMP and stimulates ATPase activity of HisP, which results in histidine translocation (By similarity).
subunit: The complex is composed of two ATP-binding proteins (HisP), two transmembrane proteins (HisM and HisQ) and a solute-binding protein (HisJ). - substrates: Arginine, Histidine, lysine
- Transcriptomic analysis reveal differential gene expressions of Escherichia coli O157:H7 under ultrasonic stress
Li, Ultrasonics sonochemistry 2021 - “...znuC 1.1 zinc transport system ATP-binding protein BC33_RS10395 hisQ 1.3 histidine transport system permease protein BC33_RS10390 hisJ 1.1 histidine transport system substrate-binding protein BC33_RS10400 hisM 1.5 histidine transport system permease protein BC33_RS10405 hisP 1.7 histidine transport system ATP-binding protein BC33_RS17885 lolC 1.2 lipoprotein-releasing system protein LolC...”
- Ligand binding specificity of the Escherichia coli periplasmic histidine binding protein, HisJ.
Paul, Protein science : a publication of the Protein Society 2017 - GeneRIF: the specificity of HisJ for binding L-His and many related naturally occurring compounds. Data confirm that L-His is the preferred ligand, but that 1-methyl-L-His and 3-methyl-L-His can also bind, while the dipeptide carnosine binds weakly and D-histidine and the histidine degradation products, histamine, urocanic acid and imidazole do not bind.
- Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12.
Link, Electrophoresis 1997 (PubMed)- GeneRIF: N-terminus verified by Edman degradation on mature peptide
- Biodistribution of 89Zr-DFO-labeled avian pathogenic Escherichia coli outer membrane vesicles by PET imaging in chickens
Li, Poultry science 2023 - “...metabolism Periplasm 44 P03841 MALM Function unknown Periplasm 45 P0AEG4 DSBA Function unknown Periplasm 46 P0AEU0 HISJ Function unknown Periplasm Cytoplasm 47 P0A853 TNAA Amino acid transport and metabolism Cytoplasm 48 P0A9H3 LDCI Amino acid transport and metabolism Cytoplasm 49 P0A9B2 G3P1 Carbohydrate transport and metabolism...”
- Structure-based screening of binding affinities via small-angle X-ray scattering.
Chen, IUCrJ 2020 - “...zero. 3. Materials and methods 3.1. Sample preparation The E. coli HisBP gene (Uniprot entry P0AEU0, residues 23260) was cloned into pET-M11 plasmids containing kanamycin resistance, T7-lac promoter and an N-terminal His 6 tag with a TEV cleavage site. The pETMSCIII plasmids for GlnBP (Uniprot entry...”
- The Escherichia coli proteome: past, present, and future prospects
Han, Microbiology and molecular biology reviews : MMBR 2006 - “...5.33/21,652.86 5.24/27,057 (5-6) HisI P06989 HisJ P0AEU0 Imidazole glycerol phosphate synthase subunit Histidine biosynthesis bifunctional protein HisIE...”
- A systems approach discovers the role and characteristics of seven LysR type transcription factors in Escherichia coli
Rodionova, Scientific reports 2022 - “...prophage CPS-53 integrase 0.000511 101 1.6 b3043 ygiL Putative fimbrial protein YgiL 0.00100 10 1.6 b2309 hisJ Histidine ABC transporter periplasmic binding protein 0.000348 216 1.4 b1025 dgcT Putative diguanylate cyclase DgcT 0.001038 122 1.4 b0854 potF Putrescine ABC transporter periplasmic binding protein 0.000346 400 1.4...”
- Human body temperature (37degrees C) increases the expression of iron, carbohydrate, and amino acid utilization genes in Escherichia coli K-12
White-Ziegler, Journal of bacteriology 2007 - “...hisC b2021 Histidinol phosphate aminotransferase hisJ b2309 Histidine transport protein (ABC superfamily, peri_bind) hisQ b2308 Histidine and...”
- Time-dependent translational response of E. coli to excess Zn(II)
Easton, Journal of biomolecular techniques : JBT 2006 (secret) - Sulfur and nitrogen limitation in Escherichia coli K-12: specific homeostatic responses
Gyaneshwar, Journal of bacteriology 2005 - “...contained four genes regulated by NtrC/Nac (b0652, b0653, b2309, and b2310), three trp biosynthetic genes (b1260, b1261, and b1263), and six arg biosynthetic...”
- Interfering with different steps of protein synthesis explored by transcriptional profiling of Escherichia coli K-12
Sabina, Journal of bacteriology 2003 - “...b3172 b1737 b1814 b4143 b1829 b0603. b0015 b4142 b1216 b3728 b2614 b1320 b2309 b0161 b0607 b1190 b1189 260 39 35 20 14 13 12 12 12 11 10 9.7 9.2 9.1 8.9 8.9 7.9...”
- Combined, functional genomic-biochemical approach to intermediary metabolism: interaction of acivicin, a glutamine amidotransferase inhibitor, with Escherichia coli K-12
Smulski, Journal of bacteriology 2001 - “...b0059 b2024 b2022 b2021 b2020 b2025 b2019 b2023 b2026 b2309 b2018 b3686 b3687 b1829 b0977 b0077 b0264 b2622 b3617 b0345 b0116 b4119 b4118 b2261 b4013 2.0 2.4...”
- Fitness of Escherichia coli during urinary tract infection requires gluconeogenesis and the TCA cycle
Alteri, PLoS pathogens 2009 - “...c0066 peptidyl-prolyl cis trans isomerase 2.61 3.10E-07 YliJ c0923 hypothetical GST protein 2.61 4.00E-04 HisJ c2851 histidine-binding protein precursor 2.55 1.90E-04 ArgG c3929 argininosuccinate dehydrogenase 2.41 2.60E-02 OppA c1707 oligopeptide substrate-binding protein 2.39 7.80E-03 OppA c1707 oligopeptide substrate-binding protein 2.34 2.10E-04 SerA c3494 D-3-phosphoglycerate dehydrogenase 2.28...”
- RcsB contributes to the distinct stress fitness among Escherichia coli O157:H7 curli variants of the 1993 hamburger-associated outbreak strains
Carter, Applied and environmental microbiology 2012 - “...Z2276 Z2277 Z2278 Z2279 Z3010 Z3568 Z3569 Z3570 Z3571 Z3572 Z2022 Z4961 Z0671 Z0740 Z2780 Z1952 ATP-binding protein of glutamate/aspartate transport system...”
SF5M90T_2317 histidine ABC transporter substrate-binding protein HisJ from Shigella flexneri 5a str. M90T
40% identity, 94% coverage
- RNA-seq analysis of the influence of anaerobiosis and FNR on Shigella flexneri
Vergara-Irigaray, BMC genomics 2014 - “...synthetase/amidase 1.16 0.70 SF5M90T_1806 edd 6-phosphogluconate dehydratase 1.15 -0.72 SF5M90T_807 glutathione transporter ATP-binding protein 1.08 SF5M90T_2317 hisJ histidine-binding periplasmic protein of high-affinity histidine transport system 1.05 SF5M90T_806 ybiK putative asparaginase 1.02 SF5M90T_1122 potC spermidine/putrescine transport system permease 0.97 -1.09 -0.92 SF5M90T_2882 pepP proline aminopeptidase P II...”
PFLU_4765 ABC transporter substrate-binding protein from Pseudomonas [fluorescens] SBW25
41% identity, 98% coverage
PP4486, PP_4486 basic amino acid ABC transporter, periplasmic basic amino acid-binding protein from Pseudomonas putida KT2440
39% identity, 89% coverage
- Gene expression reprogramming of Pseudomonas alloputida in response to arginine through the transcriptional regulator ArgR
Molina-Henares, Microbiology (Reading, England) 2024 - “...(cbb3-I) + + PP_4477 astB arginine catabolism + + PP_4480 astA-II arginine catabolism + + PP_4486 argT arginine transport + + PP_0294 cbcV choline/betaine/carnitine transport + PP_0308 dipeptidase + PP_0310 dgcA dimethylglycine dehydrogenase + PP_0311_0312_0313 dgcB dimethylglycine dehydrogenase; flavoprotein subunits + PP_0315 gbcA glycine-betaine dioxygenase subunit...”
- Role of the Transcriptional Regulator ArgR in the Connection between Arginine Metabolism and c-di-GMP Signaling in Pseudomonas putida
Barrientos-Moreno, Applied and environmental microbiology 2022 (secret) - Nitrogen Metabolism in Pseudomonas putida: Functional Analysis Using Random Barcode Transposon Sequencing
Schmidt, Applied and environmental microbiology 2022 (secret) - Arginine as an environmental and metabolic cue for cyclic diguanylate signalling and biofilm formation in Pseudomonas putida
Barrientos-Moreno, Scientific reports 2020 - “...signalling in S. enterica serovar Typhimurium 9 . Two proteins, corresponding to loci PP_0282 and PP_4486, present around 40% identical residues with ArtI of S. enterica , and a third one, encoded by PP_3593, shows 36% identity. The three are periplasmic substrate binding proteins sharing around...”
- “...( https://www.pseudomonas.com ; 20 ) as ArtJ ( l -arginine ABC transporter substrate-binding subunit) and PP_4486 as ArgT (lysine/arginine/ornithine ABC transporter substrate-binding protein); PP_3593 has no specific annotation, but the protein is 72% identical to the octopine-binding protein OccT of Pseudomonas protegens CHA0. Hereafter, this nomenclature...”
- The CbrB Regulon: Promoter dissection reveals novel insights into the CbrAB expression network in Pseudomonas putida
Barroso, PloS one 2018 - “...5079252 5078804 5080022 49 PP4474 alaS alaninetRNA ligase 2,60 enzymatic 5084164 5084605 5084244 5084505 50 PP4486 argT lysine /arginine /ornithine ABC transporter substrate-binding protein 2,48 transport 5096664 5097230 5096657 5097130 51 PP4520 hypothetical protein 4,01 transport 5132506 5133016 5132454 5133090 52 PP4643 xanthine/uracil permease family protein...”
- “...( glgA ) encoding a glycogen synthase, PP4391 encoding the flagellar basal-body rod protein FlgB, PP4486 encoding a putative lysine/arginine/ornithine ABC transporter substrate-binding protein, PP4643 encoding a putative xanthine/uracil permease family protein and the gene crcZ encoding for the regulatory RNA CrcZ. Validation of the expression...”
- Differential proteomics and physiology of Pseudomonas putida KT2440 under filament-inducing conditions
Crabbé, BMC microbiology 2012 - “...gi|26990739 0.32* Putative oxidoreductase PP_4038 gi|26990740 0.26* Dihydropyrimidine dehydrogenase PP_4116 AceA gi|26990810 0.27* Isocitrate lyase PP_4486 gi|26991172 0.51 Cationic amino acid ABC transporter, periplasmic binding protein PP_4490 PhhA gi|26991176 0.47* Phenylalanine 4-monooxygenase PP_4593 gi|26991277 0.20* Hypothetical protein PP_4593 PP_4666 MmsB gi|26991350 0.24* 3-hydroxyisobutyrate dehydrogenase PP_4667 MmsA-2...”
- L-lysine catabolism is controlled by L-arginine and ArgR in Pseudomonas aeruginosa PAO1
Chou, Journal of bacteriology 2010 - “...systems in recent studies (26). PP0283 to PP0280 and PP4486 to PP4482 show high similarities in gene organization as well as in amino acid sequences (82% and...”
- Multiple and interconnected pathways for L-lysine catabolism in Pseudomonas putida KT2440
Revelles, Journal of bacteriology 2005 - “...cadA (PP4140) Periplasmic protein (PP0282) Periplasmic protein (PP4486) P. syringae sv.syringae PATHWAYS FOR L-LYSINE CATABOLISM IN P. PUTIDA KT2440 VOL. 187,...”
- More
B9Q16_23895 transporter substrate-binding domain-containing protein from Pantoea ananatis
40% identity, 85% coverage
VC1863 amino acid ABC transporter, periplasmic amino acid-binding protein from Vibrio cholerae O1 biovar eltor str. N16961
39% identity, 97% coverage
BOV_A0593 amino acid ABC transporter, periplasmic amino acid-binding protein from Brucella ovis ATCC 25840
BAB2_0612 Solute-binding protein/glutamate receptor:Ionotropic glutamate receptor:Bacterial extracellular solute-binding protein, family 3 from Brucella melitensis biovar Abortus 2308
BRA0631 amino acid ABC transporter, periplasmic amino acid-binding protein from Brucella suis 1330
BruAb2_0595 amino acid ABC transporter, periplasmic amino acid-binding protein from Brucella abortus biovar 1 str. 9-941
BRUAB_RS13275 ABC transporter substrate-binding protein from Brucella abortus bv. 1 str. 9-941
39% identity, 99% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...biding protein precursor BP BruAb20594 BOV_A0594 PAO Arginine/Ornithine biding protein precursor BP BMEI1022 BruAb20595 BRA0632 BOV_A0593 PAO Arginine/Ornithine biding protein precursor BP BruAb10874 BRA0631 BOV_0945 BCAN_A0967 91 PAO General L-amino acid import ABC BMEI1208, appP BruAb10762 BR0745 BOV_A0890 BCAN_A0760 PAO General L-amino acid import IM BMEI1209,...”
- A comprehensive review of small regulatory RNAs in Brucella spp
King, Frontiers in veterinary science 2022 - “...analyzing a B. abortus hfq deletion strain, and in that study, two proteins, BAB1_1794 and BAB2_0612, were shown to be highly over-produced when hfq was deleted ( 43 ). These two proteins are orthologs of the A. tumefaciens proteins Atu2422 and Atu1879, respectively, and it had...”
- “...exhibiting dysregulation in the abcR1 abcR2 mutant encode components of ABC-type transport systems, including BAB1_1794, BAB2_0612, and BAB2_0879. The periplasmic-binding proteins BAB1_1794 and BAB2_0879 are part of transport systems involved in the importation of the non-proteogenic amino acid GABA in B. abortus , but neither protein...”
- Characterizing the transport and utilization of the neurotransmitter GABA in the bacterial pathogen Brucella abortus
Budnick, PloS one 2020 - “...negatively regulated by AbcR1 and AbcR2 [ 27 , 32 ]. These deletion strains include bab2_0612 ( bab_rs29240 ), bab2_0879 , and bab1_1792-bab1_1794 ( Fig 5 ). The isogenic deletion strains of bab2_0612 and bab2_0879 were constructed previously [ 32 ], and the combined bab1_17921794 deletion...”
- “...generated in the present study. The transport of 3 H-GABA only decreased by ~20% in bab2_0612 and bab1_1792-bab1_1794 when compared to the parental strain, B . abortus 2308, indicating that they may partially be involved in GABA transport. However, the transport of 3 H-GABA by bab2_0879...”
- An account of evolutionary specialization: the AbcR small RNAs in the Rhizobiales
Sheehan, Molecular microbiology 2018 - “...regulating targets that are directly or indirectly involved in pathogenesis. One of these M2-regulated targets, BAB2_0612, was found to be involved in Brucella pathogenesis, strengthening this hypothesis ( Sheehan and Caswell, 2017 ), and will be interesting to determine if any other M2 targets are linked...”
- “...putative ABC transporter amino acid-binding protein, is conserved in A. tumefaciens (Atu1879) and B. abortus (BAB2_0612). However, AbcR regulation of this target has diverged. In A. tumefaciens , AbcR1 utilizes the M1 regulatory motif to bind Atu1879. In contrast, B. abortus AbcR1 and AbcR2 utilize the...”
- A 6-Nucleotide Regulatory Motif within the AbcR Small RNAs of Brucella abortus Mediates Host-Pathogen Interactions
Sheehan, mBio 2017 - “...in the AbcR sRNAs is required for Brucella virulence. Furthermore, one of the M2-regulated targets, BAB2_0612, was found to be critical for the virulence of B.abortus in a mouse model of infection. Although these sRNAs are highly conserved among Alphaproteobacteria , the present report displays how...”
- “...expression. Importantly, only M2 was linked to B.abortus virulence. Further investigation of M2-regulated targets identified BAB2_0612 as critical for colonization of B.abortus in mice, highlighting the significance of AbcR M2-regulated transcripts for Brucella infection. Overall, our findings define the molecular mechanism of the virulence-associated AbcR system...”
- Sibling rivalry: related bacterial small RNAs and their redundant and non-redundant roles
Caswell, Frontiers in cellular and infection microbiology 2014 - “...B. abortus control the expression of several genes encoding components of ABC transport systems, including bab2_0612 and bab1_1794 , which are the orthologs of the A. tumefaciens genes atu1879 and atu2422 , respectively, discussed in the previous paragraph. It was also determined that either AbcR1 or...”
- Non-coding RNA regulation in pathogenic bacteria located inside eukaryotic cells
Ortega, Frontiers in cellular and infection microbiology 2014 - “...infection/phenotypes References Brucella abortus AbcR1 (sRNA) Not tested individually for expression inside eukaryotic cells BAB1_1794, BAB2_0612 Lack of both RNAs impairs intramacrophage survival and virulence in mice. Caswell et al., 2012 AbcR2 (asRNA) Coxiella burnetii CbsR1, CbsR2, CbsR3, CbsR4, CbsR9, CbsR11, CbsR12, CbsR14 (sRNAs) Up Unknown...”
- Identification of two small regulatory RNAs linked to virulence in Brucella abortus 2308
Caswell, Molecular microbiology 2012 - “...mediating interactions between mRNAs and small regulatory RNAs (sRNAs). Two proteins encoded by BAB1_1794 and BAB2_0612 are highly overproduced in a Brucella abortus hfq mutant compared to the parental strain, and recently, expression of orthologs of these proteins in Agrobacterium tumefaciens was shown to be regulated...”
- “...a tryptic digest identified the ~30 kDa protein as the product of the gene designated BAB2_0612 in the B. abortus 2308 genome sequence. The ~40 kDa protein was determined to be encoded by the gene designated BAB1_1794 in the B. abortus 2308 genome. Both BAB2_0612 and...”
- The RNA chaperone Hfq independently coordinates expression of the VirB type IV secretion system and the LuxR-type regulator BabR in Brucella abortus 2308
Caswell, Journal of bacteriology 2012 - “...nonradiolabeled PvirB DNA (specific competitor) or nonradiolabeled BAB2_0612 DNA (nonspecific competitor) was added to some reaction mixtures. The binding...”
- “...while a nonspecific fragment of DNA (the coding region of BAB2_0612) was not able to compete with PvirB DNA for binding to BabR. From the EMSA analyses, it was...”
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...of Paulsen et al. [ 9 ]. The second reported system is encoded by BRA0630, BRA0631, BRA0632, BRA0633, BRA0634, and BRA0635. However, when these genes were assessed using ABCISSE, only two of the five genes were predicted to be ABC transporter binding proteins (BRA0631 and BRA0632)...”
- “...biding protein precursor BP BMEI1022 BruAb20595 BRA0632 BOV_A0593 PAO Arginine/Ornithine biding protein precursor BP BruAb10874 BRA0631 BOV_0945 BCAN_A0967 91 PAO General L-amino acid import ABC BMEI1208, appP BruAb10762 BR0745 BOV_A0890 BCAN_A0760 PAO General L-amino acid import IM BMEI1209, appM BruAb10758 BR0744 BOV_0739 BCAN_A0759 PAO General L-amino...”
- Molecular targets for rapid identification of Brucella spp
Ratushna, BMC microbiology 2006 - “...2 BRA0630 (610688 .. 611938) BruAb2_0596 605152 .. 606402 1251 amino acid dehydrogenase, putative 2 BRA0631 (612027 .. 612788) BruAb2_0595 604302 .. 605063 762 amino acid ABC transporter 2 BRA0632 (612944 .. 613717) BruAb2_0594 603373 .. 604146 774 amino acid ABC transporter, 2 BRA0633 (613902 .....”
- Release of periplasmic proteins of Brucella suis upon acidic shock involves the outer membrane protein Omp25
Boigegrain, Infection and immunity 2004 - “...resulted in the loss of five full-length putative genes (BRA0631 to BRA0635) and truncated two genes (BRA0630 and BRA0636) located at the extremities of the...”
- Molecular targets for rapid identification of Brucella spp
Ratushna, BMC microbiology 2006 - “...611938) BruAb2_0596 605152 .. 606402 1251 amino acid dehydrogenase, putative 2 BRA0631 (612027 .. 612788) BruAb2_0595 604302 .. 605063 762 amino acid ABC transporter 2 BRA0632 (612944 .. 613717) BruAb2_0594 603373 .. 604146 774 amino acid ABC transporter, 2 BRA0633 (613902 .. 615005) BruAb2_0593 602085 .....”
- Comparative Review of Brucellosis in Small Domestic Ruminants
Rossetti, Frontiers in veterinary science 2022 - “...pathway signal sequence domain-containing protein); BR_RS13010 (Lrp/AsnC family of DNA binding transcriptional regulator), BRUAB_RS13270 and BRUAB_RS13275 (ex BruAb2_0594 and 0595, respectively; ABC transporter substrate-binding proteins) and BRUAB_RS13280 (ex BruAb2_0596; FAD binding oxidoreductase). More research is needed to identify the role of the GI-15 in B. melitensis...”
VAS14_06493 ABC transporter substrate-binding protein from Photobacterium angustum S14
37% identity, 97% coverage
- Shotgun redox proteomics: identification and quantitation of carbonylated proteins in the UVB-resistant marine bacterium, Photobacterium angustum S14
Matallana-Surget, PloS one 2013 - “...ABC transporter E 1 TASPYASYIQMT T MANAEDIIAGK VAS14_05968 hypothetical protein / 15 SDVSNNTLTTE P ETCTVEFTQTSGAIDMSNSK VAS14_06493 putative amino acid ABC transporter T 1 GVKIGVQRAT T HDKYLTDNFGESVEIVR VAS14_06513 formate acetyltransferase C 19 TPEYDELFSGD P IWATESMGGMGLDGR TPEYDELFSGDPIWA T ESMGGMGLDGR VAS14_01951 hypothetical protein S 1 A T MSLVREQELGQPFQFDNFRD VAS14_17071...”
- “...141 located in the substrate binding pocket domain of a putative amino acid ABC transporter (VAS14_06493); P 191 in the dimer interface of a putative pyruvate dehydrogenase complex, dehydrogenase component (VAS14_19986); P 12 in the active site in tryptophanyl-tRNA synthetase (VAS14_21322); T 57 and P 75,...”
WU75_09665 ABC transporter substrate-binding protein from Vibrio parahaemolyticus
38% identity, 90% coverage
BAB2_0611 Solute-binding protein/glutamate receptor:Ionotropic glutamate receptor:Bacterial extracellular solute-binding protein, family 3 from Brucella melitensis biovar Abortus 2308
BruAb2_0594 amino acid ABC transporter, periplasmic amino acid-binding protein from Brucella abortus biovar 1 str. 9-941
BRUAB_RS13270 ABC transporter substrate-binding protein from Brucella abortus bv. 1 str. 9-941
39% identity, 91% coverage
- Proteomics-based confirmation of protein expression and correction of annotation errors in the Brucella abortus genome
Lamontagne, BMC genomics 2010 - “...spermidine/putrescine BAB1_0739 ETC complex I BAB1_1919 Unknown BAB2_0593 Trs-ABC amino acid BAB1_0776 Unknown BAB1_1981 TlpA BAB2_0611 Trs-ABC amino acid BAB2_0880 Unknown BAB1_0881 Trs-ABC amino acid BAB2_0374 Unknown BAB2_0664 Trs-ABC peptide BAB2_1109 XylF BAB1_1117 PpiB-2 Outer membrane BAB1_0659 Omp2a BAB1_0707 OstA BAB1_0963 TolC Unknown localization BAB1_0030 Unknown...”
- Comparative Review of Brucellosis in Small Domestic Ruminants
Rossetti, Frontiers in veterinary science 2022 - “...sequence domain-containing protein); BR_RS13010 (Lrp/AsnC family of DNA binding transcriptional regulator), BRUAB_RS13270 and BRUAB_RS13275 (ex BruAb2_0594 and 0595, respectively; ABC transporter substrate-binding proteins) and BRUAB_RS13280 (ex BruAb2_0596; FAD binding oxidoreductase). More research is needed to identify the role of the GI-15 in B. melitensis virulence. Known...”
- Molecular targets for rapid identification of Brucella spp
Ratushna, BMC microbiology 2006 - “...612788) BruAb2_0595 604302 .. 605063 762 amino acid ABC transporter 2 BRA0632 (612944 .. 613717) BruAb2_0594 603373 .. 604146 774 amino acid ABC transporter, 2 BRA0633 (613902 .. 615005) BruAb2_0593 602085 .. 603188 1104 conserved hypothetical protein 2 BRA0634 615107 .. 615556 BruAb2_0592 (601534 .. 601982)...”
- Comparative Review of Brucellosis in Small Domestic Ruminants
Rossetti, Frontiers in veterinary science 2022 - “...Twin-arginine translocation pathway signal sequence domain-containing protein); BR_RS13010 (Lrp/AsnC family of DNA binding transcriptional regulator), BRUAB_RS13270 and BRUAB_RS13275 (ex BruAb2_0594 and 0595, respectively; ABC transporter substrate-binding proteins) and BRUAB_RS13280 (ex BruAb2_0596; FAD binding oxidoreductase). More research is needed to identify the role of the GI-15 in...”
BOV_A0594 amino acid ABC transporter, periplasmic amino acid-binding protein from Brucella ovis ATCC 25840
39% identity, 91% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...PAO Polar amino acid import BP BOV_1879 90 PAO Arginine/Ornithine biding protein precursor BP BruAb20594 BOV_A0594 PAO Arginine/Ornithine biding protein precursor BP BMEI1022 BruAb20595 BRA0632 BOV_A0593 PAO Arginine/Ornithine biding protein precursor BP BruAb10874 BRA0631 BOV_0945 BCAN_A0967 91 PAO General L-amino acid import ABC BMEI1208, appP BruAb10762...”
BAU10_04000 ABC transporter substrate-binding protein from Vibrio alginolyticus
38% identity, 90% coverage
- Identification of the global regulatory roles of RraA via the integrative transcriptome and proteome in Vibrio alginolyticus
Chen, mSphere 2024 - “...ABC transporters showed decreased trends in the rraA mutant, including MppA (BAU10_15390, down 2.52-fold), ArgT (BAU10_04000, down 3.42-fold), AapJ (BAU10_07410, down 3.37-fold), OusX (BAU10_06495, down 3.81-fold), OppA (BAU10_05985, down 24.48-fold), AotP (BAU10_03995, down 2.23-fold), OusV (BAU10_06505, down 3.29-fold), ArtP (BAU10_20535, down 1.78-fold), BAU10_18335(down 17.77-fold), SdaC (BAU10_20390,...”
AO356_09900 ABC transporter for L-Lysine, periplasmic substrate-binding component from Pseudomonas fluorescens FW300-N2C3
36% identity, 98% coverage
- mutant phenotype: Specific phenotypes on L-Lysine; L-Lysine. Note that this organism has a second ABC transporter operon that is also important for lysine utilization, which is not explained.
B6D87_RS21925 ABC transporter substrate-binding protein from Pseudomonas fragi
36% identity, 96% coverage
BRA0632 amino acid ABC transporter, periplasmic amino acid-binding protein from Brucella suis 1330
39% identity, 91% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...Paulsen et al. [ 9 ]. The second reported system is encoded by BRA0630, BRA0631, BRA0632, BRA0633, BRA0634, and BRA0635. However, when these genes were assessed using ABCISSE, only two of the five genes were predicted to be ABC transporter binding proteins (BRA0631 and BRA0632) and...”
- “...Arginine/Ornithine biding protein precursor BP BruAb20594 BOV_A0594 PAO Arginine/Ornithine biding protein precursor BP BMEI1022 BruAb20595 BRA0632 BOV_A0593 PAO Arginine/Ornithine biding protein precursor BP BruAb10874 BRA0631 BOV_0945 BCAN_A0967 91 PAO General L-amino acid import ABC BMEI1208, appP BruAb10762 BR0745 BOV_A0890 BCAN_A0760 PAO General L-amino acid import IM...”
- Molecular targets for rapid identification of Brucella spp
Ratushna, BMC microbiology 2006 - “...2 BRA0631 (612027 .. 612788) BruAb2_0595 604302 .. 605063 762 amino acid ABC transporter 2 BRA0632 (612944 .. 613717) BruAb2_0594 603373 .. 604146 774 amino acid ABC transporter, 2 BRA0633 (613902 .. 615005) BruAb2_0593 602085 .. 603188 1104 conserved hypothetical protein 2 BRA0634 615107 .. 615556...”
SMc00140 L-lysine ABC transporter, substrate-binding component from Sinorhizobium meliloti 1021
Q92PA9 Amino-acid binding periplasmic protein from Rhizobium meliloti (strain 1021)
SMc00140 PUTATIVE AMINO-ACID BINDING PERIPLASMIC PROTEIN from Sinorhizobium meliloti 1021
36% identity, 96% coverage
- mutant phenotype: Specifically important for L-lysine utilization. The ATPase component is not encoded nearby and was not evident in the fitness data.
- A consolidated analysis of the physiologic and molecular responses induced under acid stress in the legume-symbiont model-soil bacterium Sinorhizobium meliloti
Draghi, Scientific reports 2016 - “...ABC transporter protein. P SMb20915 AslA1 Q92UC0 34 161 SVNA 2.46 Putative arylsulfatase. P SMc00140 Q92PA9 55 125 SVNA 1.30 Arginine-binding periplasmic protein 2 precursor. E-T SMc01642 PrbA Q92NF1 27 97 SVNA 1.38 Periplasmic dipeptide transportprotein precursor. E SMc00777 ThrC1 Q92RF5 38 116 SVNA 0.45 Probable...”
- A consolidated analysis of the physiologic and molecular responses induced under acid stress in the legume-symbiont model-soil bacterium Sinorhizobium meliloti
Draghi, Scientific reports 2016 - “...binding ABC transporter protein. P SMb20915 AslA1 Q92UC0 34 161 SVNA 2.46 Putative arylsulfatase. P SMc00140 Q92PA9 55 125 SVNA 1.30 Arginine-binding periplasmic protein 2 precursor. E-T SMc01642 PrbA Q92NF1 27 97 SVNA 1.38 Periplasmic dipeptide transportprotein precursor. E SMc00777 ThrC1 Q92RF5 38 116 SVNA 0.45...”
- Quantitative proteomic analysis of the Hfq-regulon in Sinorhizobium meliloti 2011
Sobrero, PloS one 2012 - “...identified by 2D-PAGE in previous studies: 6 proteins shared with Barra-Bily et al . [39] (SMc00140, SMc00242, SMc00770, SMc00784, SMc02884 and SMc03786), 3 proteins shared with Torres-Quesada et al . [38] (SMc02121, SMc02171, SMc02259), and 4 proteins that were common to all three proteomic studies (SMc00786,...”
- Proteomic alterations explain phenotypic changes in Sinorhizobium meliloti lacking the RNA chaperone Hfq
Barra-Bily, Journal of bacteriology 2010 - “...(2.6) SMb21441 SMb21549 SMb21647 SMc00072 Stat (2.0) thtR agpA SMc00140 Stat (0.5) Expo (0.5); Stat (0.35) Expo (0.48); Stat (0.32) Expo (0.5) Expo (0.22) Stat...”
- “...amino acids (LivK, SMc03124, SMc03157, AapJ, and SMc00140), carbon supply (SMc02737, SMc02344, SMc0024, Ehu, and AgpA), and minerals (PhoD, SitA, SMc00784)...”
- The Sinorhizobium meliloti RNA chaperone Hfq influences central carbon metabolism and the symbiotic interaction with alfalfa
Torres-Quesada, BMC microbiology 2010 - “...of L-aminoacids or peptides ( aapJ , aapQ , aapP , oppB , oppC , SMc00140 , SMc01597 , SMc02259 , SMb21572 , SMb20605 ), branched-chain aminoacids ( livH , livM , livG , livF , livK ), uracil/uridine ( SMc01823 , SMc01824 , SMc01825 ,...”
PP_0282 ABC transporter substrate-binding protein from Pseudomonas putida KT2440
PP0282 amino acid ABC transporter, periplasmic amino acid-binding protein from Pseudomonas putida KT2440
37% identity, 96% coverage
- Gene expression reprogramming of Pseudomonas alloputida in response to arginine through the transcriptional regulator ArgR
Molina-Henares, Microbiology (Reading, England) 2024 - “...hisPQM operon, the second most relevant arginine transporter, encoded by the predicted operon PP_0283( aotP )-PP_0282( artJ )-PP_0281-PP_0280 [ 19 ], is positively regulated by ArgR. Other amino acid and dipeptide transporters also show reduced mRNA levels in the argR mutant. Additionally, a set of genes...”
- Genome-Wide Analysis of Targets for Post-Transcriptional Regulation by Rsm Proteins in Pseudomonas putida
Huertas-Rosales, Frontiers in molecular biosciences 2021 - “...antiporter) and hisP (PP_4483; ATP-binding subunit of a histidine/lysine/arginine/ornithine transporter) are targets for RsmE; artJ (PP_0282; L-arginine ABC transporter substrate-binding subunit) and amaD (PP_3596; D-lysine oxidase) are targets for RsmA, and amaB (PP_5258; L-piperidine-6-carboxylate dehydrogenase) is a target for both RsmE and RsmI ( Supplementary Table...”
- Arginine as an environmental and metabolic cue for cyclic diguanylate signalling and biofilm formation in Pseudomonas putida
Barrientos-Moreno, Scientific reports 2020 - “...in c-di-GMP signalling in S. enterica serovar Typhimurium 9 . Two proteins, corresponding to loci PP_0282 and PP_4486, present around 40% identical residues with ArtI of S. enterica , and a third one, encoded by PP_3593, shows 36% identity. The three are periplasmic substrate binding proteins...”
- “...genes are located in clusters encoding predicted amino acid ABC transporters (Supplementary Fig. S5 ). PP_0282 is annotated in the Pseudomonas genome database ( https://www.pseudomonas.com ; 20 ) as ArtJ ( l -arginine ABC transporter substrate-binding subunit) and PP_4486 as ArgT (lysine/arginine/ornithine ABC transporter substrate-binding protein);...”
- The metabolic response of P. putida KT2442 producing high levels of polyhydroxyalkanoate under single- and multiple-nutrient-limited growth: highlights from a multi-level omics approach
Poblete-Castro, Microbial cell factories 2012 - “...and other compounds across the membrane, as well as periplasmic ABC transporters (encoded by PP_1071, PP_0282, PP_0112, PP_0885) (Table 3 ) were clearly downregulated. The dual limitation triggered high induction of only one ABC transporter, LivK (26.4-fold), which is one of the five proteins that form...”
- UEG Week 2024 Poster Presentations
, United European gastroenterology journal 2024 - UEG Week 2023 Poster Presentations
, United European gastroenterology journal 2023 - The metabolic response of P. putida KT2442 producing high levels of polyhydroxyalkanoate under single- and multiple-nutrient-limited growth: highlights from a multi-level omics approach
Poblete-Castro, Microbial cell factories 2012 - “...amino acid ABC transporter PP1071 only in C 23 -2.0 n.s. amino acid ABC transporter PP0282 -33.3 15 -1.2 n.s. Branched-chain amino acid ABC PP4867 -16.7 11 1.8 n.s. Dipeptide ABC transporter PP0885 -5.0 22 1.2 n.s. Amino acid biosynthesis PP0671 GlyA-2 -3.6 20 -1.3 n.s....”
- Comparative transcriptomics and proteomics of p-hydroxybenzoate producing Pseudomonas putida S12: novel responses and implications for strain improvement
Verhoef, Applied microbiology and biotechnology 2010 - “...) PP3433 1.5 d 2.8 Transport systems Amino acid ABC transporter, periplasmic amino acid-binding protein PP0282 1.6 Aromatic amino acid transporter ( aroP2 ) PP0927 3.0 9.0 Amino acid ABC transporter ATP-binding protein PP1068 2.5 Amino acid ABC transporter, periplasmic amino acid-binding protein PP1071 0.640.01 c...”
- Multiple and interconnected pathways for L-lysine catabolism in Pseudomonas putida KT2440
Revelles, Journal of bacteriology 2005 - “...(PP5257) amaB (PP5258) cadA (PP4140) Periplasmic protein (PP0282) Periplasmic protein (PP4486) P. syringae sv.syringae PATHWAYS FOR L-LYSINE CATABOLISM IN P....”
Q98MK0 Probable amino acid binding protein of ABC transporter from Mesorhizobium japonicum (strain LMG 29417 / CECT 9101 / MAFF 303099)
39% identity, 90% coverage
- Cyclic Isothiocyanate Goitrin Impairs Lotus japonicus Nodulation, Affects the Proteomes of Nodules and Free Mesorhizobium loti, and Induces the Formation of Caffeic Acid Derivatives in Bacterial Cultures
Jeong, Plants (Basel, Switzerland) 2024 - “...reduced and eighteen increased in abundancy. Six of them function in amino acid transport (Q987A7, Q98MK0, Q98H18, Q98CD0, Q98D26, and Q98EE6) and one in dipeptide transport (Q98L42). Q98JY5, a binding protein component of the sugar ABC transporter, is significantly upregulated. Q98IL8, a protein related to the...”
- “...The latter four candidates are proteins occurring in the symbiont and the free-living M. loti (Q98MK0; Q985D9; Q98CD0; and Q98EE6). Seven substrate-binding proteins of sugar transporters were identified as candidates in the free-living M. loti . Many candidates were proteins acting in glutathione-related processes with estimated...”
A1S_2302 ABC Lysine-arginine-ornithine transporter periplasmic ligand binding protein from Acinetobacter baumannii ATCC 17978
48% identity, 67% coverage
- Whole transcriptome analysis of Acinetobacter baumannii assessed by RNA-sequencing reveals different mRNA expression profiles in biofilm compared to planktonic cells
Rumbo-Feal, PloS one 2013 - “...in efflux systems (A1S_1117, A1S_1751, and A1S_1755), or amino acid metabolism and transport (A1S_0956 and A1S_2302), or encoded an acyl carrier protein (A1S_0114). The complete list is shown in Table 4 . 10.1371/journal.pone.0072968.t004 Table 4 List of genes expressed only in biofilm cells and inhibited in...”
- “...0.75 transcriptional regulator (AraC family) A1S_2208 0.38 transcriptional regulator A1S_2216 11.96 CsuB A1S_2217 3.84 CsuA A1S_2302 0.75 ABC lysine-arginine-ornithine transporter A1S_2380 8.81 acinetobactin biosynthesis protein A1S_2388 1.69 putative ferric acinetobactin transport system A1S_2408 0.09 HNH endonuclease (93% Ab MDR-TJ) * A1S_2580 1.40 23-dihydro-2,3-dihydroxybenzoate synthetase, isochorismatase A1S_3120...”
RHE_PC00160 probable amino acid ABC transporter, substrate-binding protein from Rhizobium etli CFN 42
40% identity, 99% coverage
- Impact of c-di-GMP on the Extracellular Proteome of Rhizobium etli
Lorite, Biology 2022 - “...AapJ, BraC1, BraC2, OppA, AfuA1, AfuA3, HmuT, OccT, ModA, PotF, MexE1, ZnuA, RHE_CH00971, RHE_PC00008, RHE_PC00118, RHE_PC00160, RHE_CH02418, RHE_PF00186, RHE_CH01465, RHE_CH04006, RHE_PF00410, RHE_CH02293, RHE_CH03027, RHE_CH03963, RHE_CH03445, RHE_PB00126, RHE_CH00175, RHE_PF00269, RHE_CH02683, RHE_CH02890, RHE_PE00259, RHE_PF00068, RHE_CH00492, RHE_CH01210, RHE_CH02898, RHE_PF00091, RHE_PB00025, RHE_PF00321, RHE_PB00139, RHE_PF00395, RHE_CH00485, RHE_PC00167, RHE_CH03866, RHE_CH02084 Bold letters...”
Atu1879 ABC transporter, substrate binding protein (amino acid) from Agrobacterium tumefaciens str. C58 (Cereon)
35% identity, 98% coverage
- A comprehensive review of small regulatory RNAs in Brucella spp
King, Frontiers in veterinary science 2022 - “...( 43 ). These two proteins are orthologs of the A. tumefaciens proteins Atu2422 and Atu1879, respectively, and it had been reported that the production of Atu2422 and Atu1879 was regulated by AbcR1 and AbcR2 in A. tumefaciens ( 41 ). Bioinformatic analyses revealed that potential...”
- A central role for the transcriptional regulator VtlR in small RNA-mediated gene regulation in Agrobacterium tumefaciens
Budnick, Scientific reports 2020 - “...components of ABC-type transport systems (e.g., chvE , malE , atu2422 , atu4678 , and atu1879 ) 25 . Indeed, our transcriptomic data largely resembles the proteomic data from that study (Supplementary Table S1 ). However, aside from the ABC-type transport systems, RNA-seq revealed additional AbcR1...”
- “...colleagues show differences in expression and regulation of chvE , atu2422 , atu4678 , and atu1879 in abcR1 and vtlR (Supplementary Tables S1 , S3 ) 25 . None of these genes appear to be differentially regulated in the VtlR regulon described previously 32 . Altogether,...”
- An account of evolutionary specialization: the AbcR small RNAs in the Rhizobiales
Sheehan, Molecular microbiology 2018 - “...2011 ). Deletion of abcR1 in A. tumefaciens leads to an abundance of two proteins: Atu1879 and Atu2422. Similar to the regulatory capacity of S. meliloti AbcR1, A. tumefaciens AbcR1 plays the predominant role in regulating these two targets ( Wilms et al ., 2011 )....”
- “...AbcR target, encoding a putative ABC transporter amino acid-binding protein, is conserved in A. tumefaciens (Atu1879) and B. abortus (BAB2_0612). However, AbcR regulation of this target has diverged. In A. tumefaciens , AbcR1 utilizes the M1 regulatory motif to bind Atu1879. In contrast, B. abortus AbcR1...”
- A 6-Nucleotide Regulatory Motif within the AbcR Small RNAs of Brucella abortus Mediates Host-Pathogen Interactions
Sheehan, mBio 2017 - “...this prediction, nothing is currently known about BAB2_0612 in Brucella . Interestingly, in A.tumefaciens , Atu1879, the orthologue of BAB2_0612, is regulated by AbcR1, but the regulation is performed specifically by the M1 motif ( 16 ). However, the results of our present study show that...”
- Two separate modules of the conserved regulatory RNA AbcR1 address multiple target mRNAs in and outside of the translation initiation region
Overlöper, RNA biology 2014 - “...hfq mutant and we wondered whether more than the previously identified three targets atu2422 , atu1879 , and frcC were controlled by AbcR1. 26 , 61 We used a combination of proteomics and bioinformatics approaches to identify numerous new targets of AbcR1. RNARNA interactions studies revealed...”
- “...to mass spectrometry ( Table 1 ). The presence of the known targets Atu2422 and Atu1879 among them validated this approach. Northern blot experiments revealed that the increased protein levels in the AbcR1 mutant correlated with increased mRNA levels of atu2422 and atu1879 in stationary phase...”
- Sibling rivalry: related bacterial small RNAs and their redundant and non-redundant roles
Caswell, Frontiers in cellular and infection microbiology 2014 - “...but not AbcR2, controls the expression of the ABC transporter-associated genes atu0064 ( frcC ), atu1879 , and atu2422 by altering the stability of the mRNA messages, resulting in a negative impact on the expression of these genes, Atu2422 is a periplasmic-binding protein of an ABC...”
- “...systems, including bab2_0612 and bab1_1794 , which are the orthologs of the A. tumefaciens genes atu1879 and atu2422 , respectively, discussed in the previous paragraph. It was also determined that either AbcR1 or AbcR2 controls expression of some of these genes; however, the regulatory redundancy of...”
- Identification of two small regulatory RNAs linked to virulence in Brucella abortus 2308
Caswell, Molecular microbiology 2012 - “..., encodes proteins highly similar to BAB1_1794 and BAB2_0612. These orthologs are designated Atu2422 and Atu1879, respectively, in A. tumefaciens C58. BAB1_1794 and Atu2422 are 88% similar (73% identical) at the amino acid level, while BAB2_0612 and Atu1879 are 70% similar (52% identical). Of direct relevance...”
- “...the B. abortus 2308 protein BAB2_0612, which is an ortholog of the Agrobacterium tumefaciens protein Atu1879. The ~40 kDa protein was identified as the B. abortus 2308 protein BAB1_1794, which is an ortholog of the A. tumefaciens protein Atu2422. Figure 2 Identification of two small RNAs...”
- Hfq influences multiple transport systems and virulence in the plant pathogen Agrobacterium tumefaciens
Wilms, Journal of bacteriology 2012 - “...atu2422, coding for a GABA and proline binding protein, atu1879, coding for a periplasmic binding protein of unknown function, and frcC, coding for a putative...”
- More
BCAN_A0967 extracellular solute-binding protein family 3 from Brucella canis ATCC 23365
BR0955 amino acid ABC transporter, periplasmic amino acid-binding protein from Brucella suis 1330
BMI_I953 amino acid ABC transporter, periplasmic amino acid-binding protein from Brucella microti CCM 4915
37% identity, 94% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...precursor BP BMEI1022 BruAb20595 BRA0632 BOV_A0593 PAO Arginine/Ornithine biding protein precursor BP BruAb10874 BRA0631 BOV_0945 BCAN_A0967 91 PAO General L-amino acid import ABC BMEI1208, appP BruAb10762 BR0745 BOV_A0890 BCAN_A0760 PAO General L-amino acid import IM BMEI1209, appM BruAb10758 BR0744 BOV_0739 BCAN_A0759 PAO General L-amino acid import...”
- Determination and Characterization of (Novel) Circulating Strains of Brucella sp. Within the National Bovine Brucellosis Control Program in Ecuador
Garrido-Haro, Pathogens (Basel, Switzerland) 2025 (no snippet) - Isolation and characterisation of Brucella melitensis by bacteriological and molecular methods from livestock in North Cyprus
Demirpence, Veterinarni medicina 2022 - “...deletion of 2 653 bp in BR0951- BR0955 in B. melitensis and B. abortus BMEI0752f BMEI0752r CAG-GCA-AAC-CCT-CAG-AAG-C GAT-GTG-GTA-ACG-CAC-ACC-AA 218 ribosomal...”
- Role of Brucella abortus Biovar 3 in the Outbreak of Abortion in a Dairy Cattle Herd Immunized with Brucella abortus Iriba Vaccine
Alamian, Archives of Razi Institute 2020 (secret) - ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...The first of these is an ABC importer encoded by BR0952 (IM), BR0953 (IM), and BR0955 (BP) [ 9 ]. Although this particular system is listed in the inventory, the ABC protein component of the system was not located in the BS genome and so this...”
- “...PAO Polar amino acid import IM BR0953 BCAN_A0965 PAO Polar amino acid import BP BMEI1104 BR0955 BOV_0854 95 PAO Polar amino acid import BP BR0862 BOV_A0903 96 UVR DNA repair ABC2 BMEI0878 BruAb1110, UvrA UvrA BOV_1063 BCAN_A1124 97 YHBG Possible LPS transport to outer membrane ABC...”
- Evaluation of a multiplex PCR assay (Bruce-ladder) for molecular typing of all Brucella species, including the vaccine strains
López-Goñi, Journal of clinical microbiology 2008 - “...transporter binding protein Deletion of 2,653 bp in BR0951- BR0955 in B. melitensis and B. abortus 11, 12 218 Ribosomal protein S12, gene rpsL Point mutation in...”
- Whole-genome analyses of speciation events in pathogenic Brucellae
Chain, Infection and immunity 2005 - “...well as parts of the flanking genes BR0951 and BR0955 (partly deleted from the two other strains), which affects an amino acid ABC-type transporter and a...”
- The genome sequence of Brucella pinnipedialis B2/94 sheds light on the evolutionary history of the genus Brucella
Audic, BMC evolutionary biology 2011 - “...strains, and that of B. ovis with Brucella sp. strain NVSL 07-0026. Between BMI_I949 and BMI_I953, there is a 2,653 bp region deleted from the B. pinnipedialis B2/94 large chromosome (position: 928,716-931,368 in B. microti CCM 4915) but also from B. ovis ATCC 25840, Brucella sp....”
WP_023080435 ABC transporter substrate-binding protein from Brucella suis 04-0115
37% identity, 94% coverage
RL2753 putative solute-binding component of ABC transporter from Rhizobium leguminosarum bv. viciae 3841
38% identity, 98% coverage
- Metabolic Adaptation of a C-Terminal Protease A-Deficient Rhizobium leguminosarum in Response to Loss of Nutrient Transport
Jun, Frontiers in microbiology 2017 - “...component of ABC transporter 36/267 3.77 Amino acid ABC transporter, periplasmic amino acid-binding protein VBIRhiLeg32091_4007 RL2753 27 Solute binding component of ABC transport system 36/299 1.62 ilvE VBIRhiLeg32091_2512 RL1326 24 Ile, Leu, and Val biosynthesis 36/311 3.14 Predicted erythritol ABC transporter 2, substrate-binding component VBIRhiLeg32091_0201 pRL120200...”
- “...as might be expected ( Figure 3 ). The periplasmic amino acid-binding protein encoded by RL2753 shares identity with two amino acid-binding proteins in E. coli , ArtJ (39%) and HisJ (41%), the former being the periplasmic binding component of the L -Arg ABC transport system...”
- Identification of protein secretion systems and novel secreted proteins in Rhizobium leguminosarum bv. viciae
Krehenbrink, BMC genomics 2008 - “...RL0718 31.0. flagellin 13 27.7 129 10 RL0518 39.4 ribose-binding protein 14 25.0. 113 9 RL2753 27.9 arginine/ornithine-binding protein 15 20.4 57 5 RL1369 24.5 pentapeptide repeat protein 16 17.1 85 6 RL2404 20.5 peptidyl prolyl cis-trans isomerase *17 16.3 83 6 RL1580 15.3 nucleoside diphosphate...”
- “...0.983 23 MKLFYLAFAGVLYLASFAGDAFA GEP peptidyl prolyl cis-trans isomerase RL2697 0.999 0.933 28 MMNIAGLGRLAAATVVLSGLAFGSAVKA GEP COG3184 RL2753 1.000 1.000 25 MLNSTRIFAAASIAAMSLFAGSAMA GEP arginine/ornithine-binding protein RL3329 1.000 0.975 25 MHRSLASCSALALLFALALAGGAAA GEP membrane bound lytic tranglycosylase RL3745 1.000 0.999 23 MKKSLLSAVALTAMVAFSGNAWA GEP Leu/Ile/Val-binding protein (BraC) RL4218 1.000 0.998 22...”
RHE_CH02418 probable amino acid ABC transporter, substrate-binding protein from Rhizobium etli CFN 42
38% identity, 98% coverage
- Impact of c-di-GMP on the Extracellular Proteome of Rhizobium etli
Lorite, Biology 2022 - “...BraC1, BraC2, OppA, AfuA1, AfuA3, HmuT, OccT, ModA, PotF, MexE1, ZnuA, RHE_CH00971, RHE_PC00008, RHE_PC00118, RHE_PC00160, RHE_CH02418, RHE_PF00186, RHE_CH01465, RHE_CH04006, RHE_PF00410, RHE_CH02293, RHE_CH03027, RHE_CH03963, RHE_CH03445, RHE_PB00126, RHE_CH00175, RHE_PF00269, RHE_CH02683, RHE_CH02890, RHE_PE00259, RHE_PF00068, RHE_CH00492, RHE_CH01210, RHE_CH02898, RHE_PF00091, RHE_PB00025, RHE_PF00321, RHE_PB00139, RHE_PF00395, RHE_CH00485, RHE_PC00167, RHE_CH03866, RHE_CH02084 Bold letters indicate...”
Q98CD0 Amino acid ABC transporter, binding protein from Mesorhizobium japonicum (strain LMG 29417 / CECT 9101 / MAFF 303099)
38% identity, 91% coverage
- Cyclic Isothiocyanate Goitrin Impairs Lotus japonicus Nodulation, Affects the Proteomes of Nodules and Free Mesorhizobium loti, and Induces the Formation of Caffeic Acid Derivatives in Bacterial Cultures
Jeong, Plants (Basel, Switzerland) 2024 - “...eighteen increased in abundancy. Six of them function in amino acid transport (Q987A7, Q98MK0, Q98H18, Q98CD0, Q98D26, and Q98EE6) and one in dipeptide transport (Q98L42). Q98JY5, a binding protein component of the sugar ABC transporter, is significantly upregulated. Q98IL8, a protein related to the type VI...”
- “...four candidates are proteins occurring in the symbiont and the free-living M. loti (Q98MK0; Q985D9; Q98CD0; and Q98EE6). Seven substrate-binding proteins of sugar transporters were identified as candidates in the free-living M. loti . Many candidates were proteins acting in glutathione-related processes with estimated G values...”
4zv1A An ancestral arginine-binding protein bound to arginine (see paper)
38% identity, 87% coverage
Q92S63 Periplasmic binding ABC transporter from Rhizobium meliloti (strain 1021)
SMc02259 PUTATIVE PERIPLASMIC BINDING ABC TRANSPORTER PROTEIN from Sinorhizobium meliloti 1021
37% identity, 86% coverage
- A consolidated analysis of the physiologic and molecular responses induced under acid stress in the legume-symbiont model-soil bacterium Sinorhizobium meliloti
Draghi, Scientific reports 2016 - “...acid-binding periplasmic protein. E-T SMc03786 Bfr Q92LA7 55 110 SVNA 1.51 Bacterioferritin (BFR). P SMc02259 Q92S63 46 146 SVNA 1.14 Lysine-arginine-ornithine-binding periplasmic protein precursor. E-T SMb21144 Q926G9 33 233 SVNA 0.56 Putative choline uptake ABC transporter periplasmic solute-binding protein precursor. M SMc01605 Q92NI5 37 161 SVNA...”
- A consolidated analysis of the physiologic and molecular responses induced under acid stress in the legume-symbiont model-soil bacterium Sinorhizobium meliloti
Draghi, Scientific reports 2016 - “...L-amino acid-binding periplasmic protein. E-T SMc03786 Bfr Q92LA7 55 110 SVNA 1.51 Bacterioferritin (BFR). P SMc02259 Q92S63 46 146 SVNA 1.14 Lysine-arginine-ornithine-binding periplasmic protein precursor. E-T SMb21144 Q926G9 33 233 SVNA 0.56 Putative choline uptake ABC transporter periplasmic solute-binding protein precursor. M SMc01605 Q92NI5 37 161...”
- Quantitative proteomic analysis of the Hfq-regulon in Sinorhizobium meliloti 2011
Sobrero, PloS one 2012 - “...SMc00784, SMc02884 and SMc03786), 3 proteins shared with Torres-Quesada et al . [38] (SMc02121, SMc02171, SMc02259), and 4 proteins that were common to all three proteomic studies (SMc00786, SMc01525, SMc01946, SMc02118). Thus, our quantitative proteomic analysis confirmed those hits and significantly expanded the list of candidate...”
- “...acids, like the amino acid permease (Aap) transport system or other putative amino acid transporters (SMc02259, SMb20706). It is worth pointing out that the tight control of amino acid transporter expression by Hfq has also been recognized in the pea symbiont Rhizobium leguminosarum [63] . In...”
- The Sinorhizobium meliloti RNA chaperone Hfq influences central carbon metabolism and the symbiotic interaction with alfalfa
Torres-Quesada, BMC microbiology 2010 - “...components of the ABC transporters of myo -inositol (IbpA), fructose (FrcB), -glucosides (AglE), amino acids (SMc02259), leucine (LivK) and L-amino acids (AapJ and AapP) as well as two enzymes related to myo -inositol catabolism, IolE and IolD. Therefore, regardless the recognized phenotypic differences between the 1021...”
- “...( aapJ , aapQ , aapP , oppB , oppC , SMc00140 , SMc01597 , SMc02259 , SMb21572 , SMb20605 ), branched-chain aminoacids ( livH , livM , livG , livF , livK ), uracil/uridine ( SMc01823 , SMc01824 , SMc01825 , SMc01827 ), sugar amines...”
PFLU_0313 ABC transporter substrate-binding protein from Pseudomonas [fluorescens] SBW25
37% identity, 94% coverage
PSPTO5358 amino acid ABC transporter, periplasmic amino acid-binding protein from Pseudomonas syringae pv. tomato str. DC3000
34% identity, 96% coverage
TC 3.A.1.3.6 / P35120 NocT aka ATU6027 aka AGR_PTI_67, component of Nopaline porter from Agrobacterium tumefaciens (see 3 papers)
Atu6027 ABC transporter, substrate binding protein (nopaline) from Agrobacterium tumefaciens str. C58 (Cereon)
33% identity, 88% coverage
- substrates: Nopaline
- The role of solute binding proteins in signal transduction
Matilla, Computational and structural biotechnology journal 2021 - “...a Peripla_BP_4/PF13407 S. meliloti AI-2 80 M AI-2 vs no AI-2 13.0 d [201] NocT atu6027 /T a SBP_bac_3/PF00497 A. tumefaciens Nopaline, pyronopaline, octopine Nopaline/pyronopaline mix (1 mM) vs no nopaline/pyronopaline 54.5 b /68.1 d [202] a Genes associated with: T: transporter genes; SP: Signaling protein...”
- Ecological Conditions and Molecular Determinants Involved in Agrobacterium Lifestyle in Tumors
Meyer, Frontiers in plant science 2019 - “...2019 ; Dessaux and Faure, 2018 ). Among them, in Agrobacterium strain C58, nocT ( atu6027 ) encodes a periplasmic binding protein (PBP) involved in the binding of nopaline and pyronopaline ( Lang et al., 2014 ). The ocd ( atu6016 ) gene encodes an ornithine...”
- Agrobacterium uses a unique ligand-binding mode for trapping opines and acquiring a competitive advantage in the niche construction on plant host
Lang, PLoS pathogens 2014 - “...cassette into the genes nos (= atu6015 ), ocd (= atu6016 ), and nocT (= atu6027 ) as described previously [46] . A. tumefaciens was cultivated at 30C in Agrobacterium broth (AB) minimal medium supplemented with ammonium chloride (1 g/L) and mannitol (2 g/L) except when...”
TC 3.A.1.3.23 / Q9HU31 Amino acid (Lysine/arginine/ornithine/histidine/octopine) ABC transporter periplasmic binding protein, component of Amino acid transporter, PA5152-PA5155. Probably transports numerous amino acids including lysine, arginine, histidine, D-alanine and D-valine (Johnson et al. 2008). Regulated by ArgR from Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)
PA5153 probable periplasmic binding protein from Pseudomonas aeruginosa PAO1
MPAO1_27435 ABC transporter substrate-binding protein from Pseudomonas aeruginosa
36% identity, 87% coverage
- substrates: Alanine, Arginine, Histidine, Valine, lysine
- Virtual Screening and Meta-Analysis Approach Identifies Factors for Inversion Stimulation (Fis) and Other Genes Responsible for Biofilm Production in <i>Pseudomonas aeruginosa</i>: A Corneal Pathogen
Emeka, Current issues in molecular biology 2024 - “...- conserved hypothetical protein 2.01 5.86 10 8 PA2586 gacA response regulator GacA 1.97 0.0001 PA5153 - amino acid (lysine/arginine/ornithine/histidine/octopine) ABC transporter periplasmic binding protein 1.95 0.0177 PA3091 - hypothetical protein 1.86 2.54 10 5 PA0747 pauC aldehyde dehydrogenase 1.84 1.91 10 10 PA0301 spuE polyamine...”
- A periplasmic phospholipase that maintains outer membrane lipid asymmetry in Pseudomonas aeruginosa
Guest, Proceedings of the National Academy of Sciences of the United States of America 2023 - “...than the untreated control in both replicates: mlaZ , PA3238 (renamed mlaY ), PA3596, and PA5153 ( Fig. 5 A ). As expected, mutants with transposons in mlaZ are less abundant, indicating that our experiment can successfully identify proteins of the second Mla pathway. Importantly, the...”
- Adsorption of extracellular proteases and pyocyanin produced by Pseudomonas aeruginosa using a macroporous magnesium oxide-templated carbon decreases cytotoxicity
Hirakawa, Current research in microbial sciences 2022 - “...1.33.E+07 0.00.E+00 G3XD52 MaoC-like protein (PA3302) 66.561 3.27.E+07 3.04.E+07 Q9HU31 ABC transporter periplasmic binding protein (PA5153) 63.569 1.26.E+06 1.45.E+07 Q9I1R3 ABC transport protein (PA2204) 62.183 1.02.E+06 5.00.E+06 Q9I6J1 Putrescine-binding protein (SpuD) 61.373 3.67.E+06 5.48.E+06 Q9I5W4 Metalloprotease (ImpA) 61.116 1.17.E+07 9.64.E+06 Q9HW11 UPF0234 protein (PA4395) 59.911 3.33.E+07...”
- New insights into the antibacterial and quorum sensing inhibition mechanism of Artemisia argyi leaf extracts towards Pseudomonas aeruginosa PAO1
Kong, 3 Biotech 2021 - “...expression of outer membrane protein (OmpA), amino acid transporter (PA5153), 3 Biotech (2021) 11:97 Page 9 of 15 97 Fig. 4Assay of the biofilm formation by P....”
- “...the expression of lysine-arginine-ornithine-histidine-octopine transport protein (PA5153) and polyamine transporter (AgtB and SpuD) was repressed upon AALE...”
- The development of a new parameter for tracking post-transcriptional regulation allows the detailed map of the Pseudomonas aeruginosa Crc regulon
Corona, Scientific reports 2018 - “...0,5 0,56 1,09 Transport PA5152 Probable ATP-binding component of ABC transporter 0,09 1,2 3,51 Transport PA5153 Amino acid (lysine/arginine/ornithine/histidine/octopine) ABC transporter periplasmic binding protein 0,8 1,32 2,95 Transport dctP PA5167 DctP 2,07 2,44 4,87 Transport dctQ PA5168 DctQ 1,98 2 3,72 Transport PA5217 Probable binding protein...”
- Novel targets of the CbrAB/Crc carbon catabolite control system revealed by transcript abundance in Pseudomonas aeruginosa
Sonnleitner, PloS one 2012 - “...AACAACAA (53 to 46) PA5112 estA 2,25 2 2,23 esterase EstA AAAAACAA (24 to 17) PA5153 2.42 2.55 2.92 2.28 probable periplasmic binding protein PA5167 dctP 4,35 4,05 3,37 6,85 probable c4-dicarboxylate-binding protein AAGAACAA (20 to 13) PA5168 dctQ 2,19 2,12 6,54 6,4 probable dicarboxylate transporter...”
- A theoretical and experimental proteome map of Pseudomonas aeruginosa PAO1
Lecoutere, MicrobiologyOpen 2012 - “...0.193 160 PA5140 hisF1 Imidazoleglycerol-phosphate synthase E C 27.1 28 5.10 5.03 0.628 0.067 161 PA5153 Periplasmic binding protein ET P 27.6 27 5.13 4.77 0.795 0.232 162 PA5161 rmlB dTDP-D-glucose dehydratase M U 39.5 40 5.63 5.60 0.640 0.406 163 PA5171 arcA Arginine deiminase E...”
- Phenotypic and genome-wide analysis of an antibiotic-resistant small colony variant (SCV) of Pseudomonas aeruginosa
Wei, PloS one 2011 - “...note that the genes PA5152 (ABC transporter, ATP binding component), and, to a large extent, PA5153 (periplasmic binding protein), probably involved in the transport of arginine, are also up-regulated. The transcriptome analysis not only provided insights into the PAO-SCV mechanisms involved in aminoglycoside-resistance, but also explained...”
- More
- Proteome-wide identification of druggable targets and inhibitors for multidrug-resistant <i>Pseudomonas aeruginosa</i> using an integrative subtractive proteomics and virtual screening approach
Vemula, Heliyon 2025 - Adsorption of extracellular proteases and pyocyanin produced by Pseudomonas aeruginosa using a macroporous magnesium oxide-templated carbon decreases cytotoxicity
Hirakawa, Current research in microbial sciences 2022 - “...Q9I4P3 Flagellar hook-associated protein (FlgK) 68.059 1.33.E+07 0.00.E+00 G3XD52 MaoC-like protein (PA3302) 66.561 3.27.E+07 3.04.E+07 Q9HU31 ABC transporter periplasmic binding protein (PA5153) 63.569 1.26.E+06 1.45.E+07 Q9I1R3 ABC transport protein (PA2204) 62.183 1.02.E+06 5.00.E+06 Q9I6J1 Putrescine-binding protein (SpuD) 61.373 3.67.E+06 5.48.E+06 Q9I5W4 Metalloprotease (ImpA) 61.116 1.17.E+07 9.64.E+06...”
- An integrated model system to gain mechanistic insights into biofilm-associated antimicrobial resistance in Pseudomonas aeruginosa MPAO1
Varadarajan, NPJ biofilms and microbiomes 2020 - “...Phosphoketolase 2.07 0.00 MPAO1_00100 LysM peptidoglycan-binding domain-containing protein 1.44 0.03 MPAO1_02290 TonB-dependent receptor 1.66 0.01 MPAO1_27435 Amino acid ABC transporter substrate-binding protein 3.09 0.03 MPAO1_05385 DUF1302 domain-containing protein 2.80 0.03 MPAO1_17965 acnA * Aconitate hydratase 1.49 0.01 48 MPAO1_24155 pilY1 * Type 4a pilus biogenesis protein...”
BAB1_0881 Solute-binding protein/glutamate receptor:Ionotropic glutamate receptor:Bacterial extracellular solute-binding protein, family 3 from Brucella melitensis biovar Abortus 2308
35% identity, 83% coverage
DGo_CA2738 transporter substrate-binding domain-containing protein from Deinococcus gobiensis I-0
35% identity, 97% coverage
BOV_0854 amino acid ABC transporter, periplasmic amino acid-binding protein from Brucella ovis ATCC 25840
35% identity, 82% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...Polar amino acid import IM BR0953 BCAN_A0965 PAO Polar amino acid import BP BMEI1104 BR0955 BOV_0854 95 PAO Polar amino acid import BP BR0862 BOV_A0903 96 UVR DNA repair ABC2 BMEI0878 BruAb1110, UvrA UvrA BOV_1063 BCAN_A1124 97 YHBG Possible LPS transport to outer membrane ABC BMEI1790...”
BMEI1104 ARGININE/ORNITHINE-BINDING PERIPLASMIC PROTEIN PRECURSOR from Brucella melitensis 16M
35% identity, 89% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...BCAN_A0964 PAO Polar amino acid import IM BR0953 BCAN_A0965 PAO Polar amino acid import BP BMEI1104 BR0955 BOV_0854 95 PAO Polar amino acid import BP BR0862 BOV_A0903 96 UVR DNA repair ABC2 BMEI0878 BruAb1110, UvrA UvrA BOV_1063 BCAN_A1124 97 YHBG Possible LPS transport to outer membrane...”
- Comparative proteomics analyses reveal the virB of B. melitensis affects expression of intracellular survival related proteins
Wang, PloS one 2009 - “...2.5 Q50 gi|17987454 BMEI1171 argC N-acetyl-gamma-glutamyl-phosphate reductase 34/37 5.89/6.27 0.54 E C 2.2 Q35 gi|17987387 BMEI1104 - arginine/ornithine-binding periplasmic protein precursor 27/31 4.77/4.72 0.61 ET P T Q53 gi|17988946 BMEII0601 - cystine-binding periplasmic protein precursor 28/30 7.74/6.77 0.54 ET P 9.3 Q65 gi|17988895 BMEII0550 proX glycine...”
CXG97_RS05305, NRG857_03880 arginine ABC transporter substrate-binding protein ArtJ from Escherichia coli
33% identity, 97% coverage
WP_023080384 ABC transporter substrate-binding protein from Brucella melitensis
35% identity, 88% coverage
ArtJ / b0860 L-arginine ABC transporter periplasmic binding protein (EC 7.4.2.1) from Escherichia coli K-12 substr. MG1655 (see paper)
ArtJ / P30860 L-arginine ABC transporter periplasmic binding protein (EC 7.4.2.1) from Escherichia coli (strain K12) (see paper)
ARTJ_ECOLI / P30860 ABC transporter arginine-binding protein 1 from Escherichia coli (strain K12) (see paper)
TC 3.A.1.3.3 / P30860 ArtJ aka B0860, component of Arginine porter from Escherichia coli (see 7 papers)
artJ / GB|BAA35574.1 arginine ABC transporter, periplasmic arginine-binding protein ArtJ from Escherichia coli K12 (see 8 papers)
W8TQQ2 ABC transporter arginine-binding protein 1 from Escherichia coli
NP_415381 L-arginine ABC transporter periplasmic binding protein from Escherichia coli str. K-12 substr. MG1655
b0860 arginine transporter subunit from Escherichia coli str. K-12 substr. MG1655
33% identity, 97% coverage
- function: Part of the ABC transporter complex ArtPIQMJ involved in arginine transport. Binds L-arginine with high affinity.
subunit: The complex is composed of two ATP-binding proteins (ArtP), two transmembrane proteins (ArtM and ArtQ) and two solute-binding proteins (ArtJ and ArtI). - substrates: Arginine
- Label-Free Proteomic Approach to Study the Non-lethal Effects of Silver Nanoparticles on a Gut Bacterium
Domingo, Frontiers in microbiology 2019 - “..., D -transpeptidase LdtD (A0A125X4Z9; log2FC = 0.20, 0.03, 4.18) Bacteriophage N4 receptor (L3QSY0; log2FCtransporter (W8TQQ2; log2FC = 0.21, 0.14, 5.26) (Phosphate acyltransferase (W1HGW9; log2FC = 0.44, 0.43, 5.28) Potassium efflux system KefA (V1AK89; log2FC = 0.11, 0.01, 4.01) ( PutA protein (V6FL94; log2FC = 0.34,...”
- A third periplasmic transport system for L-arginine in Escherichia coli: molecular characterization of the artPIQMJ genes, arginine binding and transport.
Wissenbach, Molecular microbiology 1995 (PubMed)- GeneRIF: N-terminus verified by Edman degradation on mature peptide
- Characterization of a Novel Hybrid Plasmid Coharboring blaKPC-2 and qnrVC4 in a Clinical Citrobacter freundii Strain
Zhu, Antimicrobial agents and chemotherapy 2020 - Energetics-based protein profiling on a proteomic scale: identification of proteins resistant to proteolysis
Park, Journal of molecular biology 2007 - “...26 P32697 aphA 212 23.5 5.94 27 P10344 glnH 226 25.0 6.87 P30860 artJ 224 24.9 5.97 28 P10344 glnH 226 25.0 6.87 29 P00448 sodA 205 23.0 6.44 30 P12758 udp 252...”
- The Escherichia coli proteome: past, present, and future prospects
Han, Microbiology and molecular biology reviews : MMBR 2006 - “...5.27/24,964 (DIGE 4.5-6.5) 5.07/31,478 (5-6) ArtJ P30860 5.97/24,908.11 5.94/25,009 (DIGE 4.5-6.5) 5.59/24,831 (DIGE 4.5-6.5) ArtP P0AAF6 Arginine-binding...”
- Protein thiol modifications visualized in vivo
Leichert, PLoS biology 2004 - “...(P06959), AcnB (P36683), AdhE (P17547), AhpC (P26427), and -glutamyl phosphate reductase (P07004), ArtI (P30859), ArtJ (P30860), aspartate semialdehyde dehydrogenase (P00353), carbonic anhydrase (P36857), carbonic anhydrase (P36857), citrate synthase (P00891), DAHP synthetase (P00886), DppA (P23847), DsbA (P24991), GapA (P06977), glutamyl-tRNA synthetase (P04805), GroEL (P06139), GTP cyclohydrolase I...”
- Metabolic shift of Escherichia coli under salt stress in the presence of glycine betaine
Metris, Applied and environmental microbiology 2014 - “...Protein involved in stress response NADP-dependent aldehyde reductase b0860 b2480 b0623 b1761 b3544 b0954 b0811 b3770 b0474 b0003 b0073 b3460 b3829 b3829 b3829...”
- Global transcriptomic analysis of an engineered Escherichia coli strain lacking the phosphoenolpyruvate: carbohydrate phosphotransferase system during shikimic acid production in rich culture medium
Cortés-Tolalpa, Microbial cell factories 2014 - “...subunit Transport 17.8485 potG b0855 Putrescine ABC transporter - ATP binding subunit Transport 18.0562 artJ b0860 Arginine ABC transporter - periplasmic binding protein Transport 120.3908 gadC b1492 Glutamic acid: 4-aminobutyrate antiporter Transport 28.9528 hisM b2307 Lysine/arginine/ornithine ABC transporter/histidine ABC transporter - membrane subunit Transport 44.5442 narU...”
- In vitro transcription profiling of the σS subunit of bacterial RNA polymerase: re-definition of the σS regulon and identification of σS-specific promoter sequence elements
Maciag, Nucleic acids research 2011 - “...b4367 1.83 Fur, OxyR ( 84 ) ydhR Putative monooxygenase b1667 1.91 artJ Arginine transporter b0860 2.13 Upregulated in a biofilm-growing rpoS mutant derivative of MG1655 ( 18 ) Unknown and miscellaneous functions ycgY Unknown b1196 1.83 yefM Antitoxin in yefM-yoeB toxin-antitoxin system b2017 1.85 yehL...”
- A semi-supervised method for predicting transcription factor-gene interactions in Escherichia coli
Ernst, PLoS computational biology 2008 - “...but hypothesis binding is used to regulate neighboring gene [43] CpxR b2252, ais 1 ArgR b0860, artJ 1 1 Microarray and RTq-PCR expression evidence [62] FruR b2168, fruK 1 1 Yes Confirmed with direct binding evidence in Salmonella typhimurium [63] NarP b1224, narG 1 FlhDC b1070,...”
- YdgG (TqsA) controls biofilm formation in Escherichia coli K-12 through autoinducer 2 transport
Herzberg, Journal of bacteriology 2006 - “...malK acrF artJ pheP ycfT agaD b4123 b4035 b3266 b0860 b0576 b1115 b3140 6.5 6.1 5.7 5.3 4.9 4.3 4 Putative oxidoreductase; putative methyltransferase Probable...”
SMb20706 putative amino acid uptake ABC transporter periplasmic solute-binding protein precursor from Sinorhizobium meliloti 1021
33% identity, 90% coverage
ECs0943 arginine 3rd transport system periplasmic binding protein from Escherichia coli O157:H7 str. Sakai
33% identity, 97% coverage
HI1179 arginine ABC transporter, periplasmic-binding protein (artI) from Haemophilus influenzae Rd KW20
35% identity, 96% coverage
STM0890 ABC superfamily (bind_prot), arginine transport system from Salmonella typhimurium LT2
32% identity, 97% coverage
t2006 arginine-binding periplasmic protein 1 precursor from Salmonella enterica subsp. enterica serovar Typhi Ty2
32% identity, 97% coverage
5ovzA / P35120 High resolution structure of the pbp noct in complex with nopaline (see paper)
33% identity, 88% coverage
- Ligand: n-[(1s)-4-carbamimidamido-1-carboxybutyl]-d-glutamic acid (5ovzA)
Q8XFB6 ABC transporter substrate-binding protein ArtJ from Salmonella typhi
STM0887 ABC superfamily (bind_prot), arginine 3rd transport system from Salmonella typhimurium LT2
35% identity, 97% coverage
NTHI1347 arginine-binding periplasmic protein from Haemophilus influenzae 86-028NP
33% identity, 96% coverage
HP15_3031 L-arginine ABC transporter, periplasmic substrate-binding component ArtJ/HisJ/ArtI/AotJ/ArgT from Marinobacter adhaerens HP15
33% identity, 97% coverage
- mutant phenotype: Specifically important for utilization of arginine as a nitrogen source.
AHML_03370 transporter substrate-binding domain-containing protein from Aeromonas hydrophila ML09-119
33% identity, 97% coverage
NP_463215 putative arginine-binding periplasmic protein from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
STM4351 putative arginine-binding periplasmic protein from Salmonella typhimurium LT2
31% identity, 97% coverage
- Crystallographic and microcalorimetric analyses reveal the structural basis for high arginine specificity in the Salmonella enterica serovar Typhimurium periplasmic binding protein STM4351.
Stamp, Proteins 2011 (PubMed)- GeneRIF: Crystallographic and microcalorimetric analyses of Salmonella enterica serovar Typhimurium periplasmic binding protein STM4351.
- Subtyping Evaluation of Salmonella Enteritidis Using Single Nucleotide Polymorphism and Core Genome Multilocus Sequence Typing with Nanopore Reads
Xian, Applied and environmental microbiology 2022 (secret) - Mining RNA-seq data reveals the massive regulon of GcvB small RNA and its physiological significance in maintaining amino acid homeostasis in Escherichia coli
Miyakoshi, Molecular microbiology 2022 - “...Conserved tppB (dtpB) Tripeptidebinding periplasmic protein 167 0 306 0 0 48.4 R1 Conserved Verified STM4351 Argbinding periplasmic protein NA NA NA NA NA NA R1 Absent Verified Permease aroP Phe/Tyr/Trp permease 171 18 253 22 0 22.4 R1 Verified Conserved brnQ Leu/Val/Ile permease 0 0...”
- “...the putative LPS kinase gene inaA while they have acquired additional GcvB targets such as STM4351 encoding an Argbinding periplasmic protein of an ABC transporter (Table 1 ). Furthermore, phoP and ydeE mRNAs are not regulated by GcvB in Salmonella because they have lost their complementary...”
- Determination of Ligand Profiles for Pseudomonas aeruginosa Solute Binding Proteins
Fernández, International journal of molecular sciences 2019 - “...been reported before and representative examples are ArtJ of E. coli [ 54 ] and STM4351 of Salmonella enterica serovar Typhimurium [ 55 ]. However, the protein ligand specificity does not appear to be reflected in overall sequence similarity since PA0888 shares with these proteins less...”
- “...structural basis for high arginine specificity in the Salmonella enterica serovar Typhimurium periplasmic binding protein STM4351 Proteins 2011 79 2352 2357 10.1002/prot.23060 21560168 56. Oh B.H. Ames G.F. Kim S.H. Structural basis for multiple ligand specificity of the periplasmic lysine-, arginine-, ornithine-binding protein J. Biol. Chem....”
- Biophysical insights into a highly selective l-arginine-binding lipoprotein of a pathogenic treponeme
Deka, Protein science : a publication of the Protein Society 2018 - “...Tv2483 to other L-arginine-binding LBPs Protein StLAO GsArtJ STM4351 6 PROTEINSCIENCE.ORG r.m.s.d. (A) No. comparable C atoms 2.0 2.1 1.9 227 229 218 Structure...”
- “...carbon atoms), GsArtJ ((b), light red carbon atoms), and STM4351 ((c), light blue carbon atoms). The residues presented in Figure 4b for Tv2483 are shown...”
- Structural Basis for High Specificity of Amadori Compound and Mannopine Opine Binding in Bacterial Pathogens
Marty, The Journal of biological chemistry 2016 - “...acids such as ArtI from Caldanaerobacter subterraneus and STM4351 from Salmonella enterica, both in complex with arginine (PDB codes 33.6 64.9 42.8 35.7 44.1...”
- “...the Salmonella enterica serovar Typhimurium periplasmic binding protein STM4351. Proteins 79, 2352-2357 Yu, J., Ge, J., Heuveling, J., Schneider, E., and Yang,...”
- On the molecular basis of the high affinity binding of basic amino acids to LAOBP, a periplasmic binding protein from Salmonella typhimurium
Pulido, Journal of molecular recognition : JMR 2015 (PubMed)- “...diverse energetic strategies for ligand recognition. STM4351, another arginine binding protein from Salmonella, shows an entropy-driven micromolar affinity...”
- “...Source Ligand Kd WtpA HmuT LAOBP PotF OppA STM4351 TogB Pyrococcus furiosus Yersinia pestis Salmonella thypimurium E. coli E. coli Salmonella enterica Yersinia...”
- A loose domain swapping organization confers a remarkable stability to the dimeric structure of the arginine binding protein from Thermotoga maritima
Ruggiero, PloS one 2014 - “...we selected the arginine binding proteins AbpA isolated from Streptococcus pneumoniae (PDB code 4I62) and STM4351 isolated from Salmonella enterica (PDB code 2Y7I) [30] . It is commonly accepted that electrostatic interactions frequently play a major role in protein structure stabilization [31] . In this framework,...”
- “...amount (14.5% vs 21.0%) of polar residues (Asn, Ser, Gln, and Thr) when compared to STM4351. This trend is less clear in the comparison with AbpA, as TmArgBP maintains a lower amount of polar residues (14.5% vs 21.8%), but with similar percentages of charged residues (30.8%...”
- A chemical biology approach to interrogate quorum-sensing regulated behaviors at the molecular and cellular level
Lowery, Chemistry & biology 2013 - “...levels, which may also affect the action of sRNA species. Interestingly, three down-regulated proteins (ArgT, STM4351, DppA) are under the control of the sRNA termed GcvB.( Hebrard, et al., 2012 ) Although a direct link has not been validated between the lsr operon and GcvB, it...”
- More
EAMY_1314 Arginine ABC transport system, periplasmic component from Erwinia amylovora CFBP1430
32% identity, 97% coverage
FPV33_RS16870 arginine ABC transporter substrate-binding protein ArtI from Klebsiella aerogenes
32% identity, 97% coverage
- Transcriptomic analysis of nitrogen metabolism pathways in Klebsiella aerogenes under nitrogen-rich conditions
Chen, Frontiers in microbiology 2024 - “...Lysine/arginine/ornithine ABC transporter substrate-binding protein ArgT 1.87 FPV33_RS16875 artQ Arginine ABC transporter permease ArtQ 1.50 FPV33_RS16870 artJ Arginine ABC transporter substrate-binding protein 1.01 FPV33_RS16880 artM Arginine ABC transporter permease ArtM 1.24 FPV33_RS02445 argR Transcriptional regulator ArgR 2.14 FPV33_RS23940 argH Argininosuccinate lyase 1.08 Glutamate metabolism FPV33_RS24240 glnA...”
ECL_02808 arginine ABC transporter substrate-binding protein ArtI from Enterobacter cloacae subsp. cloacae ATCC 13047
31% identity, 97% coverage
VCA0759 arginine ABC transporter, periplasmic arginine-binding protein from Vibrio cholerae O1 biovar eltor str. N16961
31% identity, 97% coverage
- A systems biology approach to modeling vibrio cholerae gene expression under virulence-inducing conditions
Kanjilal, Journal of bacteriology 2010 - “...three ATP-binding cassette active-transport genes (VC1092, VC1882, VCA0759), an ion transporter (VCA1093), and two signal transduction genes (VC0200, VCA0232)....”
- “...protein VC0200 VC0291 VC0731 VC1579 VCA0232 VCA0759 VCA0788 Virulence Toxin-coregulated pilus biosynthesis protein D Toxin-coregulated pilus biosynthesis...”
- Differences in gene expression between the classical and El Tor biotypes of Vibrio cholerae O1
Beyhan, Infection and immunity 2006 - “...for a periplasmic amino acid binding protein; VCA0759 (artI), a periplasmic arginine binding protein; VC1168 (gltP-1) that encodes a proton/glutamate symporter;...”
- Comparison of genome structures of vibrios, bacteria possessing two chromosomes
Tagomori, Journal of bacteriology 2002 - “...VCA0204 VCA0276 VCA0291 VCA0511 VCA0606 VCA0657 VCA0702 VCA0759 VCA0805 VCA0859 VCA0937 VCA0982 VCA1026 Regulatory protein MalT Sulfate permease family protein...”
ACS91_16450 arginine ABC transporter substrate-binding protein from Vibrio parahaemolyticus
32% identity, 97% coverage
- Comparative Proteomics and Secretomics Revealed Virulence and Antibiotic Resistance-Associated Factors in Vibrio parahaemolyticus Recovered From Commonly Consumed Aquatic Products
Zhu, Frontiers in microbiology 2020 - “...metal ion binding, succinate dehydrogenase (ubiquinone) activity, tricarboxylic acid cycle S18 A0A0L7Z6L0 Arginine ABC TSBP ACS91_16450 27,341.39 4.82 10.93 Ligand-gated ion channel activity, nitrogen compound transport, membrane, outer membrane-bounded periplasmic space S19 A0A0L7YZR8 Cytochrome C ACS91_10120 14,421.19 4.57 25.55 Electron transfer activity, heme binding, iron ion...”
VPA0637 arginine ABC transporter, periplasmic arginine-binding protein from Vibrio parahaemolyticus RIMD 2210633
32% identity, 97% coverage
DR_0564 amino acid ABC transporter, periplasmic amino acid-binding protein from Deinococcus radiodurans R1
32% identity, 86% coverage
PP_3593 L-lysine and D-lysine ABC transporter, substrate-binding component from Pseudomonas putida KT2440
PP3593, PP_3593 amino acid ABC transporter, periplasmic amino acid-binding protein from Pseudomonas putida KT2440
32% identity, 89% coverage
- mutant phenotype: Specifically important for utilization of L-lysine and D-lysine.
- Arginine as an environmental and metabolic cue for cyclic diguanylate signalling and biofilm formation in Pseudomonas putida
Barrientos-Moreno, Scientific reports 2020 - “...40% identical residues with ArtI of S. enterica , and a third one, encoded by PP_3593, shows 36% identity. The three are periplasmic substrate binding proteins sharing around 25% identical residues, amino acids likely involved in arginine binding are conserved, and the corresponding genes are located...”
- “...l -arginine ABC transporter substrate-binding subunit) and PP_4486 as ArgT (lysine/arginine/ornithine ABC transporter substrate-binding protein); PP_3593 has no specific annotation, but the protein is 72% identical to the octopine-binding protein OccT of Pseudomonas protegens CHA0. Hereafter, this nomenclature is followed. To define the potential role of...”
- A Broad Spectrum Racemase in Pseudomonas putida KT2440 Plays a Key Role in Amino Acid Catabolism
Radkov, Frontiers in microbiology 2018 - “...The most highly overexpressed gene in the wt strain compared to the alr strain was PP3593 (fold-change 27), which is a putative AA transporter/AA-binding protein localized to the periplasm (Table 2 ). Although this gene has not been characterized biochemically, it appears to be part of...”
- “...alr Difference Fold change P -value Periplasmic Amino acid transport and metabolism; Signal transduction mechanisms PP_3593 Part of d -Lys catabolism 426.28 15.95 410.33 27 0.02 Periplasmic Cell wall/membrane/envelope biogenesis PP_3722 Part of d -Lys catabolism 102.51 7.07 95.43 14 0.04 Cytoplasmic membrane Energy production and...”
- Comparative Transcriptome Analysis of Pseudomonas putida KT2440 Revealed Its Response Mechanisms to Elevated Levels of Zinc Stress
Peng, Frontiers in microbiology 2018 - “...PP_1400 kgtP 0.27 0.01 0.19 0.04 Alpha-ketoglutarate permease PP_2453 ansB 7.07 0.45 3.53 0.33 Glutaminase-asparaginase PP_3593 4.17 0.23 9.00 0.24 Amino acid ABC transporter substrate-binding protein PP_3596 amaD 2.0 0.35 4.20 0.57 D-lysine oxidase PP_5033 hutU 4.50 1.15 Urocanate hydratase CARBON METABOLISM AND ENERGY GENERATION PP_0104...”
- Computational prediction of the Crc regulon identifies genus-wide and species-specific targets of catabolite repression control in Pseudomonas bacteria
Browne, BMC microbiology 2010 - “...9.1 4.5 NO PP_3434 hypothetical protein 6.7 nd NM PP_3530 conserved hypothetical protein 2.0 nd PP_3593 PP_3593 amino acid ABC transporter, periplasmic amino acid-binding protein nd 6.3 bkdA-1 PP_4401 PP_4401 3-methyl-2-oxobutanoate dehydrogenase 3.2 1.6 phhA PP_4490 PP_4490 phenylalanine-4-hydroxylase 2.8 1.9 PP_4495 PP_4495 aromatic amino acid transport...”
- Identification of the initial steps in D-lysine catabolism in Pseudomonas putida
Revelles, Journal of bacteriology 2007 - “...primers; lane 1, RT-PCR based on ORF PP3592 and ORF PP3593 primers; lane 2, RT-PCR based on ORF PP3593 and ORF PP3594 primers; lane 3, RT-PCR based on ORF...”
- “...(from 4 to 7 nucleotides). BLAST analyses revealed that PP3593, PP3594, PP3595, and PP3597 are members of ABC transporter systems and that PP3596 exhibits high...”
MCR_1690 transporter substrate-binding domain-containing protein from Moraxella catarrhalis BBH18
31% identity, 96% coverage
ESA_RS11400 arginine ABC transporter substrate-binding protein ArtJ from Cronobacter sakazakii ATCC BAA-894
35% identity, 87% coverage
- The Global Response of Cronobacter sakazakii Cells to Amino Acid Deficiency
Chen, Frontiers in microbiology 2018 - “...Sulfate adenylyltransferase ESA_RS03740 cysA 6.52 Sulfate ABC transporter ATP-binding protein ESA_RS03675 N/A 6.50 Hypothetical protein ESA_RS11400 artJ 6.46 Arginine ABC transporter substrate-binding protein ESA_RS13095 glnK 6.45 Nitrogen regulatory protein P-II 2 ESA_RS03670 N/A 6.43 Sugar ABC transporter substrate-binding protein ESA_RS04175 yfcG 6.4 Thiol:disulfide oxidoreductase ESA_RS16950 thiG...”
2y7iA / Q8ZKA9 Structural basis for high arginine specificity in salmonella typhimurium periplasmic binding protein stm4351. (see paper)
32% identity, 87% coverage
- Ligands: arginine; zinc ion (2y7iA)
N646_4487 arginine ABC transporter substrate-binding protein from Vibrio alginolyticus NBRC 15630 = ATCC 17749
31% identity, 97% coverage
ArtI / b0863 putative ABC transporter periplasmic binding protein ArtI from Escherichia coli K-12 substr. MG1655 (see 3 papers)
ARTI_ECOLI / P30859 Putative ABC transporter arginine-binding protein 2 from Escherichia coli (strain K12) (see paper)
TC 3.A.1.3.3 / P30859 ArtI aka B0863, component of Arginine porter from Escherichia coli (see 7 papers)
NP_415384 putative ABC transporter periplasmic binding protein ArtI from Escherichia coli str. K-12 substr. MG1655
b0863 arginine transporter subunit from Escherichia coli str. K-12 substr. MG1655
31% identity, 97% coverage
- function: Part of the ABC transporter complex ArtPIQMJ involved in arginine transport.
subunit: The complex is composed of two ATP-binding proteins (ArtP), two transmembrane proteins (ArtM and ArtQ) and two solute-binding proteins (ArtJ and ArtI). - substrates: Arginine
- Biodistribution of 89Zr-DFO-labeled avian pathogenic Escherichia coli outer membrane vesicles by PET imaging in chickens
Li, Poultry science 2023 - “...Energy production and conversion Periplasm 19 P0AEG6 DSBC Posttranslational modification, protein turnover, chaperones Periplasm 20 P30859 ARTI Function unknown Periplasm 21 P75942 FLGJ Function unknown Periplasm 22 P76002 PLIG Function unknown Periplasm 23 P75777 YBHG Cell wall/membrane/envelope biogenesis Periplasm 24 P45565 AIS Function unknown Periplasm 25...”
- Impact of chlorhexidine digluconate and temperature on curli production in Escherichia coli-consequence on its adhesion ability
Coquet, AIMS microbiology 2017 - “...proteins P61316 OM 50 4 253 2.79 Arginine-binding periplasmic protein 1 (artI) Transport of arginine P30859 P 65 5 228 2.98 D-ribose-binding periplasmic protein (rbsB) Transport of carbohydrateServe as primary receptor for chemotaxis P02925 P 70 9 716 2.27 DcrB protein (dcrB) Required for phage C1...”
- Energetics-based protein profiling on a proteomic scale: identification of proteins resistant to proteolysis
Park, Journal of molecular biology 2007 - “...P00882 deoC 259 27.7 5.50 23 P09551 argT 238 25.8 5.22 24 P30859 artI 224 25.0 5.32 25 P04790 tpiA 255 27.0 5.64 26 P32697 aphA 212 23.5 5.94 27 P10344 glnH 226...”
- The Escherichia coli proteome: past, present, and future prospects
Han, Microbiology and molecular biology reviews : MMBR 2006 - “...(DIGE 4.5-6.5) 5.18/21,250 (5-6) ArtI P30859 Arginine-binding periplasmic protein 1 5.32/25,042.20 5.24/26,625 5.27/24,964 (DIGE 4.5-6.5) 5.07/31,478...”
- Protein thiol modifications visualized in vivo
Leichert, PLoS biology 2004 - “...(P02389), AceF (P06959), AcnB (P36683), AdhE (P17547), AhpC (P26427), and -glutamyl phosphate reductase (P07004), ArtI (P30859), ArtJ (P30860), aspartate semialdehyde dehydrogenase (P00353), carbonic anhydrase (P36857), carbonic anhydrase (P36857), citrate synthase (P00891), DAHP synthetase (P00886), DppA (P23847), DsbA (P24991), GapA (P06977), glutamyl-tRNA synthetase (P04805), GroEL (P06139), GTP...”
- A third periplasmic transport system for L-arginine in Escherichia coli: molecular characterization of the artPIQMJ genes, arginine binding and transport.
Wissenbach, Molecular microbiology 1995 (PubMed)- GeneRIF: N-terminus verified by Edman degradation on mature peptide
- Effect of Global Regulators RpoS and Cyclic-AMP/CRP on the Catabolome and Transcriptome of Escherichia coli K12 during Carbon- and Energy-Limited Growth
Franchini, PloS one 2015 - “...b0598 carbon starvation protein 7.6 ybeJ b0655 glutamate/aspartate periplasmic binding transport protein 5.4 artI g b0863 arginine 3rd transport system periplasmic binding protein 4.1 ycaD b0898 putative transport protein 4.4 ompF f , i b0929 outer membrane protein 1a 27.4 * ompA f , g b0957...”
- Microarray analysis of transposition targets in Escherichia coli: the impact of transcription
Manna, Proceedings of the National Academy of Sciences of the United States of America 2004 - “...b0207 b3395 b4210 b2827 b2593 b4042 b3410 b3399 b4322 b2920 b0863 b4161 b3409 b0208 b4323 b4180 b2672 b2592 b4208 b0365 Gene yidP ybjP intC artP ytfE yafB yrfD...”
- Genome-wide transcriptional profiling of the Escherichia coli responses to superoxide stress and sodium salicylate
Pomposiello, Journal of bacteriology 2001 - “...genesa No. Gene Ratio Description PQ-activated b0463 b0605 b1415 b0863 b0864 b0710 b1378 b1452 b2351 b2962 b4131 b4133 b2198 b0429 b2752 b2414 b1190 b4383 b0184...”
VAS14_04158 arginine ABC transporter substrate-binding protein from Photobacterium angustum S14
VAS14_04158 arginine ABC transporter, periplasmic arginine-binding protein from Vibrio angustum S14
31% identity, 97% coverage
- Shotgun redox proteomics: identification and quantitation of carbonylated proteins in the UVB-resistant marine bacterium, Photobacterium angustum S14
Matallana-Surget, PloS one 2013 - “...TPGHPEYGYAPGVET T TGPLGQGITNAVGMALAEK T PGHPEYGYAPGVETTTGPLGQGITNAVGMALAEK VAS14_15214 ATP synthase subunit B C 2 MPSAVGYQ P TLAEEMGVLQER VAS14_04158 arginine ABC transporter ET 2 FAMEATYA P FEYMDENNQIQGFDVDIAK VGVQNGSTHQSYLTDQMPGV T AVPYTSYQDAFIDMK VAS14_04998 elongation factor EF-2 J 2 AGPQLLE P IMHVDVFTPEDHVGDVIGDLNR GMQLVLDAVVDYLPSPTEVDPQPLTDPETGEPTGEVA T VSADEPLK VAS14_05433 isocitrate dehydrogenase C 1 FTEGAF K...”
- “...3 TPGHPEYGYAPGVETT T GPLGQGITNAVGMALAEK VAS14_04153 putative arginine ABC transporter, ATP-bindingprotein E 1 ALMMKPEVLLFDE P TAALDPEITSQIVQIIK VAS14_04158 arginine ABC transporter ET 3 FAMEA T YAPFEYMDENNQIQGFDVDIAK FAMEATYA P FEYMDENNQIQGFDVDIAK VAS14_04998 elongation factor EF-2 J 2 TGEVHDGES T TDFMEQEAER VAS14_05363 seryl-tRNA synthetase J 1 PAQETY R EISSCSNMWDFQAR VAS14_05498 putative...”
- Proteome analysis of the UVB-resistant marine bacterium Photobacterium angustum S14
Matallana-Surget, PloS one 2012 - “...phosphocarrier protein HPr 0.62 1.33 3 0.67 1.11 5 0.54 1.21 6 0.44 1.20 5 VAS14_04158 arginine ABC transporter 0.68 0.00 1 0.70 0.00 1 0.70 1.28 2 0.99 0.00 1 VAS14_22197 peptide ABC transporter 0.72 1.04 3 0.67 1.16 2 0.59 1.32 2 0.75 1.20...”
- “...glyceraldehyde-3-phosphate dehydrogenase 0.53 7.12E-11 41 35441 2084 3.58 VAS14_14989 transaldolase 5 35103 274 0.31 6D VAS14_04158 arginine ABC transporter, periplasmic arginine-binding protein 0.56 2.33E-06 15 26884 729 2.62 13D VAS14_08125 pyruvate kinase 0.57 1.94E-09 16 50710 946 1.13 VAS14_05498 putative oligopeptide ABC transporter,periplasmic oligopeptide-binding protein 16...”
S0859 arginine 3rd transport system periplasmic binding protein from Shigella flexneri 2a str. 2457T
30% identity, 97% coverage
ECs0946 arginine 3rd transport system periplasmic binding protein from Escherichia coli O157:H7 str. Sakai
30% identity, 97% coverage
Dtur_1051 extracellular solute-binding protein family 3 from Dictyoglomus turgidum DSM 6724
35% identity, 95% coverage
KPN_00840 glutamine ABC transporter periplasmic-binding protein from Klebsiella pneumoniae subsp. pneumoniae MGH 78578
33% identity, 96% coverage
FPV33_RS17190 glutamine ABC transporter substrate-binding protein GlnH from Klebsiella aerogenes
35% identity, 96% coverage
SMa0495 putative ABC transporter, periplasmic solute-binding protein from Sinorhizobium meliloti 1021
34% identity, 92% coverage
- Pervasive RNA Regulation of Metabolism Enhances the Root Colonization Ability of Nitrogen-Fixing Symbiotic α-Rhizobia
García-Tomsig, mBio 2021 - “...27 , 31 ). Similarly, genetic reporter assays have confirmed livK , prbA , and SMa0495 , all encoding the periplasmic component of ABC transporters for amino acid uptake, as targets of S. meliloti AbcR1/2 ( 15 , 22 ). These mRNAs are most probably regulated...”
- “...with the tagged transcripts. IGV plots showing read coverage and recovery profiles of prbA and SMa0495 mRNAs upon affinity chromatography with wild-type and tagged AbcR1/2 as baits. The transcription start site of each mRNA is indicated (+1). Download FIGS2, TIF file, 2.1 MB . Copyright 2022...”
- Riboregulation in Nitrogen-Fixing Endosymbiotic Bacteria
Robledo, Microorganisms 2020 - “...transporter mRNAs (3545% of the top scored). Proteomics and further genetic verification identified prbA , SMa0495 and livK , all coding for the SBP of aa transporters, as common targets of these sRNAs- except livK that is specifically repressed by AbcR1 [ 32 , 62 ]....”
- An account of evolutionary specialization: the AbcR small RNAs in the Rhizobiales
Sheehan, Molecular microbiology 2018 - “...the enrichment of LivK, the previously identified target of AbcR1, two additional targets were identified: SMa0495, encoding an ABC transporter amino acid binding protein; and PrbA, encoding an ABC transporter substrate-binding protein. SMa0495 and PrbA are down-regulated by both AbcR1 and AbcR2 ( Torres-Quesada et al...”
- “...32-nucleotide motif, which contains a 6-nucleotide motif (GUUCCC) referred to as M2, for interaction with SMa0495 ( Torres-Quesada et al ., 2014 ). Overall, these findings shed light on how AbcR1 and AbcR2, although strikingly similar in appearance, have significant differences in their regulatory profiles. It...”
- Genome-wide profiling of Hfq-binding RNAs uncovers extensive post-transcriptional rewiring of major stress response and symbiotic regulons in Sinorhizobium meliloti
Torres-Quesada, RNA biology 2014 - “...distribute Figure 6 (see opposite page). Targeting of the SMa0495 (A) and prbA (B) mRNAs by the AbcR1 and AbcR2 sRNAs. IntaRNA predicted duplexes are shown,...”
- “...with the RBS and AUG start codons of the SMa0495 and prbA mRNAs underlined. In these diagrams, numberings denote positions relative to the AUG start codon of...”
- Riboregulation in plant-associated α-proteobacteria
Becker, RNA biology 2014 - “...A double-plasmid reporter system assay showed downregulation of SMa0495 and prbA (SMc01642) by both AbcR1 and AbcR2.28,40 SMa0495 and pbrA encode periplasmic...”
- “...regulation was further supported by enrichment of the SMa0495 and prbA mRNAs in the Hfq-CoIP-RNA libraries derived from exponentially growing and salt-shocked...”
- Nucleotide sequence and predicted functions of the entire Sinorhizobium meliloti pSymA megaplasmid
Barnett, Proceedings of the National Academy of Sciences of the United States of America 2001 - “...identical to the OccM (SMA0492), OccQ (SMA0493), and OccT (SMA0495) octopine transporter of A. tumefaciens. We identified no ORFs in the S. meliloti genome with...”
ARTP_BACSU / P54535 Arginine-binding extracellular protein ArtP from Bacillus subtilis (strain 168) (see paper)
33% identity, 97% coverage
- function: Part of a binding-protein-dependent transport system for arginine.
disruption phenotype: Cells show impaired growth on arginine as the nitrogen source. - Membrane Proteomes and Ion Transporters in Bacillus anthracis and Bacillus subtilis Dormant and Germinating Spores
Chen, Journal of bacteriology 2019 - “...yyxA/GBAA_5710 znuA/GBAA_2035 UniProt no. B. subtilis P42974 P54535 P37809 P37814 P37810 O32218 P42182 P37580 P37476 P16450 O32167 Q01625 P94360 P24141 P24138...”
- A guide through the computational analysis of isotope-labeled mass spectrometry-based quantitative proteomics data: an application study
Albaum, Proteome science 2011 - “...0.044373 0.000003 1948 P21471 0.000052 >0.99 >0.99 0.558509 130 P26906 0.000063 >0.99 >0.99 0.875231 300 P54535 0.000073 >0.99 <0.000001 <0.000001 2391 O31663 0.000143 >0.99 >0.99 0.378199 340 O34633 0.000185 >0.99 >0.99 0.025892 433 P09339 0.000203 0.244699 >0.99 0.040871 619 O07516 0.000230 >0.99 >0.99 0.955961 370 P24327...”
- “...>0.99 <0.000001 1344 P24141 0.000001 >0.99 <0.000001 <0.000001 1257 O34538 <0.000001 0.000020 0.977644 <0.000001 1616 P54535 0.000073 >0.99 <0.000001 <0.000001 2391 P54466 <0.000001 0.003793 <0.000001 <0.000001 2382 P02968 <0.000001 0.000001 <0.000001 <0.000001 9369 O31501 0.000036 0.006965 <0.000001 <0.000001 1681 P46920 <0.000001 >0.99 <0.000001 <0.000001 1149 O34966...”
Q7CQW0 Glutamine high-affinity transporter from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
STM0830 ABC superfamily (bind_prot), glutamine high-affinity transporter from Salmonella typhimurium LT2
33% identity, 96% coverage
RHE_PC00118 probable amino acid ABC transporter, substrate-binding protein from Rhizobium etli CFN 42
28% identity, 93% coverage
- Impact of c-di-GMP on the Extracellular Proteome of Rhizobium etli
Lorite, Biology 2022 - “...RbsBch3, AapJ, BraC1, BraC2, OppA, AfuA1, AfuA3, HmuT, OccT, ModA, PotF, MexE1, ZnuA, RHE_CH00971, RHE_PC00008, RHE_PC00118, RHE_PC00160, RHE_CH02418, RHE_PF00186, RHE_CH01465, RHE_CH04006, RHE_PF00410, RHE_CH02293, RHE_CH03027, RHE_CH03963, RHE_CH03445, RHE_PB00126, RHE_CH00175, RHE_PF00269, RHE_CH02683, RHE_CH02890, RHE_PE00259, RHE_PF00068, RHE_CH00492, RHE_CH01210, RHE_CH02898, RHE_PF00091, RHE_PB00025, RHE_PF00321, RHE_PB00139, RHE_PF00395, RHE_CH00485, RHE_PC00167, RHE_CH03866, RHE_CH02084 Bold...”
5t0wA Crystal structure of the ancestral amino acid-binding protein anccdt- 1, a precursor of cyclohexadienyl dehydratase
34% identity, 86% coverage
TC 3.A.1.3.5 / P0A4F8 Octopine-binding periplasmic protein OccT aka OccJ, component of Octopine porter from Agrobacterium tumefaciens (see 2 papers)
31% identity, 89% coverage
Dgeo_1986 extracellular solute-binding protein, family 3 from Deinococcus geothermalis DSM 11300
31% identity, 87% coverage
GlnH / b0811 L-glutamine ABC transporter periplasmic binding protein (EC 7.4.2.1) from Escherichia coli K-12 substr. MG1655 (see 13 papers)
GlnH / P0AEQ3 L-glutamine ABC transporter periplasmic binding protein (EC 7.4.2.1) from Escherichia coli (strain K12) (see 13 papers)
GLNH_ECOLI / P0AEQ3 Glutamine-binding periplasmic protein; GlnBP from Escherichia coli (strain K12) (see paper)
TC 3.A.1.3.2 / P0AEQ3 Glutamine-binding periplasmic protein GlnH aka B0811 aka GlnBP, component of Three component ABC L-glutamine porter. The basal ATPase activity (ATP hydrolysis in the absence of substrate) is mainly caused by the docking of the closed-unliganded state of GlnH onto the transporter domain of GlnPQ. Unlike glutamine, arginine binds both GlnH domains, but does not trigger their closing. Comparison of the ATPase activity in nanodiscs with glutamine transport in proteoliposomes suggested that the stoichiometry of ATP per substrate is close to two from Escherichia coli (see 7 papers)
glnH / GB|AAN79369.1 glutamine ABC transporter, periplasmic glutamine-binding protein GlnH from Escherichia coli (see 7 papers)
UTI89_C0814 periplasmic glutamine-binding protein; permease from Escherichia coli UTI89
NP_308916 periplasmic glutamine-binding protein from Escherichia coli O157:H7 str. Sakai
NP_415332 L-glutamine ABC transporter periplasmic binding protein from Escherichia coli str. K-12 substr. MG1655
P0AEQ5 Glutamine-binding periplasmic protein from Escherichia coli O157:H7
b0811 glutamine ABC transporter periplasmic protein from Escherichia coli str. K-12 substr. MG1655
c0896 Glutamine-binding periplasmic protein precursor from Escherichia coli CFT073
Z1033 periplasmic glutamine-binding protein; permease from Escherichia coli O157:H7 EDL933
ECs0889 permease of periplasmic glutamine-binding protein from Escherichia coli O157:H7 str. Sakai
33% identity, 96% coverage
- function: Involved in a glutamine-transport system GlnHPQ.
- substrates: Glutamine
- A central metabolic circuit controlled by QseC in pathogenic Escherichia coli
Hadjifrangiskou, Molecular microbiology 2011 - “...in glutamate/glutamine interconversions ( Fig. 3CD ), and a reduction in the abundance of glutamine (UTI89_C0814, 3.6-fold) and glutamate/aspartate (UTI89_C0651, 7-fold) transporters in UTI89 qseC ( Fig. S1 ). Consistent with a defect in transport/metabolism of these amino acids, UTI89 qseC could not grow well on...”
- Ligand-bound glutamine binding protein assumes multiple metastable binding sites with different binding affinities.
Zhang, Communications biology 2020 - GeneRIF: Ligand-bound glutamine binding protein assumes multiple metastable binding sites with different binding affinities.
- Cloning and complete nucleotide sequence of the Escherichia coli glutamine permease operon (glnHPQ).
Nohno, Molecular & general genetics : MGG 1986 (PubMed)- GeneRIF: N-terminus verified by Edman degradation on mature peptide
- Rational Modification of a Cross-Linker for Improved Flexible Protein Structure Modeling.
Saridakis, Analytical chemistry 2025 - “...separate inter from intra: true. For analysis of QBP, a FASTA file containing protein accession: P0AEQ3, and 200 randomly selected protein sequences from Homo sapiens Uniprot version July 2022, was used. Sequest HT was selected with modifications, including dynamic methionine oxidation (+15.995 Da), static cysteine carbamidomethylation...”
- “...DSSO (+158.004 Da, K) and DSSO-carbamate (+188.026 Da, K), XlinkX PD Search parameters set to P0AEQ3, and 200 randomly selected protein sequences from Homo sapiens Uniprot FASTA file (July 2022), XlinkX PD Validator parameters set to FDR threshold 0.01 and separate inter from intra: true. All...”
- Modeling Flexible Protein Structure With AlphaFold2 and Crosslinking Mass Spectrometry
Manalastas-Cantos, Molecular & cellular proteomics : MCP 2024 - “...( 57 ) 23.3 crosslinks (open and closed) ( 32 ) Glutamine-binding periplasmic protein ( P0AEQ3 ) 5.3 1ggg ( 58 ) 19.0 1wdn ( 59 ) 17.5 crosslinks (closed) ( 31 ) monolinks (open, this study) PDB, Protein Data Bank; R g , radius of...”
- “...RAW files were searched against a bespoke FASTA file containing the QBP sequence (UniProt accession P0AEQ3) and 200 randomly selected protein sequences from Homo sapiens UniProt version July 2022. Fixed value peptide-spectrum match validator node was used with false discovery rate (FDR): 0.05 (target-decoy method). Modifications...”
- Toward Single Bacterium Proteomics
Végvári, Journal of the American Society for Mass Spectrometry 2023 - “...P28630 [293299] [R].LSQTQLR.[Q] 1075.63 538.32 +2 46.97 1 186.37 6.25% glutamine-binding periplasmic protein gln H P0AEQ3 [222227] [K].VNGALK.[T] 831.51 416.26 +2 28.16 3 206.69 18.75% 135 Kojibie phphorylase ycjT P77154 [555573] [K].QTILLDYSRAEVNEMQILK.[Q] 2739.50 685.63 +4 82.89 1 215.42 6.25% glyceraldehyde-3-phphate dehydrogenase A gapA P0A9B2 [218225] [K].VLPELNGK.[L]...”
- Optimized Signal Peptide for Secretory Expression of Human Recombinant Somatropin in E. coli
Ahmadi, Advanced pharmaceutical bulletin 2023 - “...Escherichia coli (strain K12) P0AB24 MTINFRRNALQLSVAALFSSAFMANA Glutamine-binding periplasmic protein glnH 22 Escherichia coli (strain K12) P0AEQ3 MKSVLKVSLAALTLAFAVSSHA Ribonuclease I rna 23 Escherichia coli (strain K12) P21338 MKAFWRNAALLAVSLLPFSSANA Disulfide interchange protein DsbC DsbC 20 Escherichia coli (strain K12) P0AEG6 MKKGFMLFTLLAAFSGFAQA D-ribose-binding periplasmic protein rbsB 25 Escherichia coli...”
- Biodistribution of 89Zr-DFO-labeled avian pathogenic Escherichia coli outer membrane vesicles by PET imaging in chickens
Li, Poultry science 2023 - “...6 P45955 CPOB Function unknown Periplasm 7 P32176 FDOG Energy production and conversion Periplasm 8 P0AEQ3 GLNH Function unknown Periplasm 9 P09394 GLPQ Energy production and conversion Periplasm 10 P0AAX3 YBIJ Function unknown Periplasm 11 P0AES9 HDEA Function unknown Periplasm 12 P02925 RBSB Carbohydrate transport and...”
- Comparative Analysis of Outer Membrane Vesicle Isolation Methods With an Escherichia coli tolA Mutant Reveals a Hypervesiculating Phenotype With Outer-Inner Membrane Vesicle Content
Reimer, Frontiers in microbiology 2021 - “...in tolA P45523 fkpA FKBP-type peptidyl-prolyl cistrans isomerase FkpA tolA 0.0061 20 Increased in tolA P0AEQ3 glnH Glutamine-binding periplasmic protein tolA 0.04 19 Increased in tolA P0AET2 hdeB Acid stress chaperone HdeB BOTH <0.00010 1.2 Increased in tolA P61889 mdh Malate dehydrogenase BOTH <0.00010 0.8 Increased...”
- Structure-based screening of binding affinities via small-angle X-ray scattering.
Chen, IUCrJ 2020 - “...His 6 tag with a TEV cleavage site. The pETMSCIII plasmids for GlnBP (Uniprot entry P0AEQ3, residues 23248) and DEBP (Uniprot entry P37902, residues 28302) were generously provided by Professor Colin Jackson, containing ampicillin resistance and N-terminal His 6 tags. The production and purification of GlnBP...”
- The Escherichia coli proteome: past, present, and future prospects
Han, Microbiology and molecular biology reviews : MMBR 2006 - “...protein P-II 1 5.17/12,425.45 GlnH P0AEQ3 Glutamine-binding periplasmic protein 6.87/24,963.41 7.04/25,213 6.93/24,504 7.32/30,106 (6-11) 7.13/29,388 (6-11)...”
- GlnH, a Novel Antigen That Offers Partial Protection against Verocytotoxigenic Escherichia coli Infection
Quinn, Vaccines 2023 - “...glnH Gene Primers for glnH were designed using a BLAST NCIB search of Uniprot ID P0AEQ5 gene name GlnH/ECs0889 against Escherichia coli O157:H7 Sakai genome sequence NC_002695.1 ( Table 1 ). The forward primer (CACCATGAAGTCTGTATTAAAAGT) included the four-base sequence CACC to allow for directional cloning of...”
- “...Coverage (%) Unique Peptides 2 pI 3 MW kDa 4 Score 5 Cell Line 1 P0AEQ5 Glutamine-binding periplasmic protein (GlnH) 77.8 21 8.44 27.19 358.58 HT29 & Caco-2 2 P65765 FKBP-type peptidyl-prolyl cis-trans isomerase FkpA 48.5 15 8.39 28.9 260.58 HT29 & Caco-2 3 P0AE10 Alkyl...”
- Impact of chlorhexidine digluconate and temperature on curli production in Escherichia coli-consequence on its adhesion ability
Coquet, AIMS microbiology 2017 - “...P0ADV7 P 63 4 279 3.67 Glutamine-binding periplasmic protein (glnH) Transport of glutamine (system GlnHPQ) P0AEQ5 P 69 7 354 3.20 2.17 Maltoporin (lamB) Transport of maltose and maltodextrinsReceptor several bacteriophages P02943 OM 47 6 428 3.45 Cystine-binding periplasmic protein (fliY) Transport of cyst(e)ine P0AEN0 P...”
- Metabolomic and proteomic investigations of impacts of titanium dioxide nanoparticles on Escherichia coli
Planchon, PloS one 2017 - “...O139:H28 43.3 A7ZSL4 Protein synthesis u 127 Glutamine-binding periplasmic protein E . coli O157:H7 27.2 P0AEQ5 Amino Acid Metabolism u 129 Glyceraldehyde-3-phosphate dehydrogenase A E . coli O157:H7 35.5 P0A9B4 Sugar metabolism u 135 Trigger factor E . coli O139:H28 48.1 A7ZIJ4 Protein export u 136...”
- Tracing the phylogenetic history of the Crl regulon through the Bacteria and Archaea genomes
Santos-Zavaleta, BMC genomics 2019 - “...of single-species biofilm formation on inanimate substrate, negative regulation of bacterial-type flagellum-dependent cell motility glnH b0811 glnH PQ IHF(+), NtrC(+/) + GEA, IMP [ 11 ] transport, amino acid transport gltA b0720 gltA ArcA(), CRP(+), IHF(+) + GEA, IMP [ 11 ] tricarboxylic acid cycle, metabolic...”
- Genome-Scale Mapping of Escherichia coli σ54 Reveals Widespread, Conserved Intragenic Binding
Bonocora, PLoS genetics 2015 - “...45 10.111 P OS06 847290 6 C TGGC ACGATTT TT T C A 847290 - b0811 glnH 44 10.791 C OS07 882891 10 T TGGC GAAGAAA TTGC A 882888 + b0846 rcdA 3739 10.538 OS08 892944 2 TAT GC ACGTTTA TTGC A 892939 + b0854 potF...”
- Metabolic shift of Escherichia coli under salt stress in the presence of glycine betaine
Metris, Applied and environmental microbiology 2014 - “...aldehyde reductase b0860 b2480 b0623 b1761 b3544 b0954 b0811 b3770 b0474 b0003 b0073 b3460 b3829 b3829 b3829 b3941 b2286 b3417 b3417 b3783 b2041 b3306...”
- Promoter and regulon analysis of nitrogen assimilation factor, sigma54, reveal alternative strategy for E. coli MG1655 flagellar biosynthesis
Zhao, Nucleic acids research 2010 - “...tttcTGGCACACCGCTTGCAATacct b3870 glnA g glutamine synthetase Amino acid biosynthesis: Glutamine 1.2 11.4 99 82 aagtTGGCACAGATTTCGCTTTatct b0811 glnH g high-affinity glutamine transport protein Transport of small molecules 1.1 8.3 70 53 aaacTGGCACGATTTTTTCATAtatg b1988 nac transcriptional repressor of histidine utilization/nitrogen assimilation (LysR family) Central intermediary metabolism 1.3 4.2...”
- Analysis of promoter targets for Escherichia coli transcription elongation factor GreA in vivo and in vitro
Stepanova, Journal of bacteriology 2007 - “...Galactokinase Galactose-1-phosphate uridylyltransferase UDP-galactose-4-epimerase glnHb b0811 1.8 2.3 Periplasmic glutamine-binding protein; permease cspD clpA...”
- Time-dependent translational response of E. coli to excess Zn(II)
Easton, Journal of biomolecular techniques : JBT 2006 (secret) - Sulfur and nitrogen limitation in Escherichia coli K-12: specific homeostatic responses
Gyaneshwar, Journal of bacteriology 2005 - “...common genes in the green oval are cbl, nac (b1988), glnH (b0811), oppA (b1243), and yeaG. The gene in the green oval for S shifts is ompF. ammonium but not for...”
- Physiological studies of Escherichia coli strain MG1655: growth defects and apparent cross-regulation of gene expression
Soupene, Journal of bacteriology 2003 - “...include glnK-amtB (b0450 to b0451), glnHPQ (b0809 to b0811), potFGHI (b0854 to b0857), ycdGHIJKLM (b1006 to b1012), ydcSTUVW (b1440 to b1444), ddpXABCDE (b1483...”
- Fitness of Escherichia coli during urinary tract infection requires gluconeogenesis and the TCA cycle
Alteri, PLoS pathogens 2009 - “...2.02 2.80E-06 UxuA c5402 mannonate dehydratase 1.94 8.30E-04 AsnS c1072 asparaginyl-tRNA synthetase 1.9 1.20E-02 GlnH c0896 glutamine-binding protein 1.68 1.40E-03 GroEL c5227 chaperonin 2.07 8.90E-08 GroEL c5227 chaperonin 2.07 7.10E-05 NusA c3926 transcription elongation factor 2.1 3.30E-02 BasR c5118 transcription factor 2.91 5.50E-03 HdeB c4320 acid...”
- Disruption of rcsB by a duplicated sequence in a curli-producing Escherichia coli O157:H7 results in differential gene expression in relation to biofilm formation, stress responses and metabolism
Sharma, BMC microbiology 2017 - “...Z0826 N-acetylglucosamine PTS permease 2.30 0.022 glnQ Z1031 Glutamine ABC transporter ATP-binding 3.09 0.006 glnH Z1033 Glutamine ABC transporter periplasmic protein 3.66 0.004 potF Z1081 Putrescine ABC transporter periplasmic-binding protein 4.42 4.0E-04 potG Z1082 Putrescine ABC transporter ATP-binding protein 4.00 9.0E-04 potH Z1083 Putrescine ABC transporter...”
- The gluconeogenesis pathway is involved in maintenance of enterohaemorrhagic Escherichia coli O157:H7 in bovine intestinal content
Bertin, PloS one 2014 - “...regulation of gcv operon 2.63 1.6E-03 Z4242 gcvT Aminomethyltransferase of glycine cleavage system 17.37 2.9E-09 Z1033 glnH Component of glutamine high-affinity transport system 5.66 1.3E-04 Z1032 glnP Component of glutamine high-affinity transport system 11.34 2.3E-06 Z1031 glnQ Component of glutamine high-affinity transport system 8.47 4.6E-05 Z3413...”
- RcsB contributes to the distinct stress fitness among Escherichia coli O157:H7 curli variants of the 1993 hamburger-associated outbreak strains
Carter, Applied and environmental microbiology 2012 - “...argT oppD dppA ylbB cstA cstC dadA Z0802 Z0803 Z0804 Z1033 Z2223 Z2224 Z2276 Z2277 Z2278 Z2279 Z3010 Z3568 Z3569 Z3570 Z3571 Z3572 Z2022 Z4961 Z0671 Z0740 Z2780...”
- Genes encoding mercuric reductases from selected gram-negative aquatic bacteria have a low degree of homology with merA of transposon Tn501
Barkay, Applied and environmental microbiology 1990 - “...and Pseudomonas vesicularis Z1028. P. vesicularis Z1042 and Z1033 represented the second group, which contained a total of three isolates. Among the 63...”
- “...Z1028 (93.8) P. vesicularis Z1042 (99.5) P. vesicularis Z1033 (99.5) Relevant characteristic or marker VOL. 56, 1990 merA GENES OF GRAM-NEGATIVE AQUATIC...”
- Differential expression of virulence and stress fitness genes between Escherichia coli O157:H7 strains with clinical or bovine-biased genotypes
Vanaja, Applied and environmental microbiology 2010 - “...in nitrogen metabolism) ECs0169 ECs0504 ECs0505 ECs0692 ECs0693 ECs0889 ECs2784 ECs3194 ECs4091 ECs4790 glnD glnK amtB gltK gltJ glnH nac argT gltB glnG...”
- Gene expression induced in Escherichia coli O157:H7 upon exposure to model apple juice
Bergholz, Applied and environmental microbiology 2009 - “...ECs0505 ECs0537 ECs0624 ECs0694 ECs0780 ECs0887 ECs0888 ECs0889 ECs1746 ECs2087 ECs2103 ECs2302 ECs2443 ECs2510 ECs2569 ECs3061 ECs3354 ECs3540 ECs3541 ECs3543...”
CA_C3620, CEA_G3627 ABC transporter substrate-binding protein from Clostridium acetobutylicum EA 2018
32% identity, 94% coverage
- Comparative genomic and transcriptomic analysis revealed genetic characteristics related to solvent formation and xylose utilization in Clostridium acetobutylicum EA 2018
Hu, BMC genomics 2011 - “...component CEA_G3626 CA_C3619 -2.49499 4.94909 4.797836 4.831871 4.227636 1.349231 amino acid ABC transporter permease CEA_G3627 CA_C3620 -2.79225 4.869307 2.77014 4.039679 3.923914 1.658129 amino acid ABC transporter periplasmic-binding protein CEA_G3629 CA_C3622 3.744723 1.616914 -1.60643 -2.30924 -3.70552 -4.20925 benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase CEA_G3648 CA_C3641 3.877563 5.273677 6.532841 7.05381 6.150331...”
- “...chemotaxis protein CEA_G0334 CA_C0323 3.362504 2.662176 2.652177 3.222052 4.952742 2.037345 sensory transduction histidine kinase CEA_G3627 CA_C3620 -2.79225 4.869307 2.77014 4.039679 3.923914 1.658129 amino acid ABC transporter periplasmic-binding protein CEA_G0390 CA_C0380 -4.23921 5.06975 5.365591 5.142555 3.394778 2.099342 periplasmic amino acid-binding protein Energy production and convertion CEA_G1083 CA_C1072...”
- “...ATPase component CEA_G3626 CA_C3619 -2.49499 4.94909 4.797836 4.831871 4.227636 1.349231 amino acid ABC transporter permease CEA_G3627 CA_C3620 -2.79225 4.869307 2.77014 4.039679 3.923914 1.658129 amino acid ABC transporter periplasmic-binding protein CEA_G3629 CA_C3622 3.744723 1.616914 -1.60643 -2.30924 -3.70552 -4.20925 benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase CEA_G3648 CA_C3641 3.877563 5.273677 6.532841 7.05381...”
- “...methyl-accepting chemotaxis protein CEA_G0334 CA_C0323 3.362504 2.662176 2.652177 3.222052 4.952742 2.037345 sensory transduction histidine kinase CEA_G3627 CA_C3620 -2.79225 4.869307 2.77014 4.039679 3.923914 1.658129 amino acid ABC transporter periplasmic-binding protein CEA_G0390 CA_C0380 -4.23921 5.06975 5.365591 5.142555 3.394778 2.099342 periplasmic amino acid-binding protein Energy production and convertion CEA_G1083...”
YPTB2548 ABC tranporter, periplasmic glutamine-binding protein glnH from Yersinia pseudotuberculosis IP 32953
33% identity, 96% coverage
- Growth of Yersinia pseudotuberculosis in human plasma: impacts on virulence and metabolic gene expression
Rosso, BMC microbiology 2008 - “...YPO2381 lactoylglutathione lyase 1.666 (< 0.001) 1.229 (0.042) YPTB2437 (pepT) YPO1631 peptidase T 0.488 (0.007) YPTB2548 (glnH) YPO2511 putative glutamine-binding periplasmic protein 1.797 (0.014) YPTB2549 (glnP) YPO2512 putative glutamine transport system permease 1.704 (0.024) YPTB2550 (glnQ) YPO2513 putative glutamine transport ATP-binding protein 1.56 (0.027) YPTB2632 (aroC)...”
- “...YPO1666 chemotaxis protein CheA 1.725 (0.015) YPTB2435 (phoQ) YPO1633 sensor protein kinase 0.527 (< 0.001) YPTB2548 (glnH) YPO2511 putative glutamine-binding periplasmic protein 1.797 (0.014) YPTB2635 (sixA) YPO2748 putative phosphohistidine phosphatase 1.508 (0.002) YPTB2763 (narP) YPO3041 nitrate/nitrite response regulator protein NarP 0.715 (0.043) YPTB2894 (rseC) YPO2714 sigma...”
TTC0807 No description from Thermus thermophilus HB27
31% identity, 89% coverage
CBU_0482 amino acid ABC transporter, periplasmic amino acid-binding protein from Coxiella burnetii RSA 493
30% identity, 84% coverage
- Quantitative Proteome Profiling of Coxiella burnetii Reveals Major Metabolic and Stress Differences Under Axenic and Cell Culture Cultivation
Dresler, Frontiers in microbiology 2019 - “...3.36 2.08 0.65 Secreted proteins CBU_0378 Hypothetical membrane associated protein 24.73 2.77 0.55 0.86 0.10 CBU_0482 Arginine-binding protein 25.40 0.35 1.08 9.77 0.14 CBU_0562a Unknown protein 14474.49 0.02 0.89 421.07 0.00 CBU_0630 Mip Macrophage infectivity potentiator 11.65 0.63 1.67 3.86 0.21 CBU_0915 EnhB.1 Enhanced entry protein...”
- Proteomics paves the way for Q fever diagnostics
Kowalczewska, Genome medicine 2011 - “...SP: CBU_1290, CBU_0235, CBU_0215, CBU_0572, CBU_1398, CBU_0236, CBU_0092, CBU_1241, CBU_1396, CBU_1227, CBU_0481, CBU_0299, CBU_0481, CBU_0495, CBU_0482, CBU_0937, CBU_0236 [ 68 ] RP-based approaches Candidate RPs for Q fever vaccine development and serodiagnosis TAP products and expression of selected SP HS (acute, chronic phase vaccine) Serodiagnosis or...”
3vvdA / Q72JG5 Crystal structure of ttc0807 complexed with ornithine (see paper)
31% identity, 89% coverage
- Ligand: l-ornithine (3vvdA)
RHE_RS30295 transporter substrate-binding domain-containing protein from Rhizobium etli CFN 42
29% identity, 90% coverage
- Rhizobium etli CFN42 proteomes showed isoenzymes in free-living and symbiosis with a different transcriptional regulation inferred from a transcriptional regulatory network
Taboada-Castro, Frontiers in microbiology 2022 - “...system ATP-binding protein K10018 MM RHE_RS24420 occT, nocT; octopine/nopaline transport system substrate-binding protein K10018 Bacteroid RHE_RS30295 occT, nocT; octopine/nopaline transport system substrate-binding protein K00033 MM RHE_RS12615 PGD, gnd, gntZ; 6-phosphogluconate dehydrogenase [EC:1.1.1.44 1.1.1.343] K00033 Bacteroid RHE_RS17825 PGD, gnd, gntZ; 6-phosphogluconate dehydrogenase [EC:1.1.1.44 1.1.1.343] K22468 MM RHE_RS02565...”
- “...occT , nocT , octopine/nopaline transport system substrate-binding protein; in MM, RHE_RS24420 was identified and RHE_RS30295 was expressed in bacteroid ( Table 1 ). The malK , mtlK , thuK ; multiple sugar transport system ATP-binding protein [EC:3.6.3.-]; in MM, the proteins RHE_RS10605, RHE_RS14795, RHE_RS27505 were...”
BCAL1610 periplasmic cystine-binding protein from Burkholderia cenocepacia J2315
33% identity, 87% coverage
BPSL1867 putative ABC transport system, cystine-binding protein from Burkholderia pseudomallei K96243
33% identity, 87% coverage
BC0402 Cystine-binding protein from Bacillus cereus ATCC 14579
31% identity, 95% coverage
BAB2_0558 Solute-binding protein/glutamate receptor:Bacterial extracellular solute-binding protein, family 3 from Brucella melitensis biovar Abortus 2308
32% identity, 87% coverage
- Proteomics of Brucella
Poetsch, Proteomes 2020 - “...SOD: superoxide dismutase (Cu-Zn) (BAB2_0535); FliY: solute-binding protein/glutamate receptor: bacterial extracellular solute-binding protein, family 3 (BAB2_0558); RbsB-2: periplasmic binding protein/LacI transcriptional regulator (BAB2_0377); DnaK: chaperone protein (BAB1_2129); SurA: trigger factor-peptidyl prolyl cis-trans isomerase (BAB1_0917); AspC: aminotransferase (BAB1_1514); CHG: choloylglycine hydrolase (BAB1_1488); SerC: phosphoserine transaminase (BAB1_1699); GroES:...”
- Large scale immune profiling of infected humans and goats reveals differential recognition of Brucella melitensis antigens
Liang, PLoS neglected tropical diseases 2010 - “...Acyl-CoA Hydrolase Serodiagnostic for Goats only BMEII0988 BAB2_0943 BRA0260 0.942 Copper-containing nitrite reductase NirK BMEII0601 BAB2_0558 BRA0682 0.917 ABC amino acid transporter, periplasmic binding protein BMEII0073 BAB2_0019 BRA0020 1.000 Hypothetical protein BMEI0668 BAB2_0441 BRA0797 1.000 Calcium binding protein Asp24 {Lin, 1995} BMEII0734 BAB2_0699 BRA0538 0.983 Oligopeptide...”
Q8YCD1 Cystine-binding periplasmic protein from Brucella melitensis biotype 1 (strain ATCC 23456 / CCUG 17765 / NCTC 10094 / 16M)
BMEII0601 CYSTINE-BINDING PERIPLASMIC PROTEIN PRECURSOR from Brucella melitensis 16M
32% identity, 87% coverage
- Pan-Proteomic Analysis and Elucidation of Protein Abundance among the Closely Related Brucella Species, Brucella abortus and Brucella melitensis
Murugaiyan, Biomolecules 2020 - “...protein L28 Q2YRY0 ABC-type glycine betaine transport system Q8YBF5 Maltose-binding periplasmic protein (Sugar ABC transporter) Q8YCD1 Cystine-binding periplasmic protein Q8YGE8 Cationic amino acid ABC transporter Q2YKN7 Uncharacterized protein Q2YKN9 Uncharacterized protein Q2YQM2 Uncharacterized protein...”
- Immuno-profiling of Brucella proteins for developing improved vaccines and DIVA capable serodiagnostic assays for brucellosis
Nandini, Frontiers in microbiology 2023 - “...subunit alpha BMEII0748 ATP-dependent protease ATP-binding subunit HslU BMEI2048 ATPase BMEI1370 Cystine-binding periplasmic protein precursor BMEII0601 Multidrug resistance protein A BMEII1118 Leu/Ile/Val-binding protein precursor BMEII0103 Preprotein translocase subunit SecG BMEI0847 acyl-CoA hydrolase BMEI0503 LemA protein BMEI0228 Electron transfer flavoprotein-ubiquinone oxidoreductase BMEI1320 NADH dehydrogenase subunit E BMEI1154...”
- Identification of a Novel Small Non-Coding RNA Modulating the Intracellular Survival of Brucella melitensis
Wang, Frontiers in microbiology 2015 - “...4142 15 BSR0626 b AE008918 661282-661409 BMEII0625 BMEII0626 128 19118 16 BSR0602 b AE008918 635956-636124 BMEII0601 BMEII0602 169 33142 17 BSR1141 b AE008917 1187552-1187749 BMEI1140 BMEI1141 198 41176 18 BSR0437 b AE008918 456155-456421 BMEII0436 BMEII0437 267 12227 19 BSR1133 AE008917 1176626-1176882 BMEI1132 BMEI1133 257 47155 20...”
- Large scale immune profiling of infected humans and goats reveals differential recognition of Brucella melitensis antigens
Liang, PLoS neglected tropical diseases 2010 - “...COG1607 Acyl-CoA Hydrolase Serodiagnostic for Goats only BMEII0988 BAB2_0943 BRA0260 0.942 Copper-containing nitrite reductase NirK BMEII0601 BAB2_0558 BRA0682 0.917 ABC amino acid transporter, periplasmic binding protein BMEII0073 BAB2_0019 BRA0020 1.000 Hypothetical protein BMEI0668 BAB2_0441 BRA0797 1.000 Calcium binding protein Asp24 {Lin, 1995} BMEII0734 BAB2_0699 BRA0538 0.983...”
- Global analysis of quorum sensing targets in the intracellular pathogen Brucella melitensis 16 M
Uzureau, Journal of proteome research 2010 - “...1.38 3 10 166 Q-TOF BMEII0590 Sugar binding protein AAL53832.1 2.68 11 27 781 Q-TOF BMEII0601 Cystine binding periplasmic protein AAL53843.1 1.38 4 13 303 Q-TOF BMEII0734 Periplasmic oligopeptide Binding protein precursor AAL53976.1 1.76 8 16 589 Q-TOF BMEII0923 Spermidine/putrescine-binding protein AAL54165.1 1.52 3 9 193...”
- Comparative proteomics analyses reveal the virB of B. melitensis affects expression of intracellular survival related proteins
Wang, PloS one 2009 - “...gi|17987387 BMEI1104 - arginine/ornithine-binding periplasmic protein precursor 27/31 4.77/4.72 0.61 ET P T Q53 gi|17988946 BMEII0601 - cystine-binding periplasmic protein precursor 28/30 7.74/6.77 0.54 ET P 9.3 Q65 gi|17988895 BMEII0550 proX glycine betaine/l-proline-binding protein ProX 32/32 5.57/5.34 0.58 E P 2.2 Q71 gi|17988978 BMEII0633 livK leucine-,...”
- “...isoleucine-, valine-, threonine-, and alanine-binding protein precursor 39/40 5.52/5.62 0.56 E P 2.2 Q54 gi|17988946 BMEII0601 - cystine-binding periplasmic protein precursor 28/30 7.74/6.90 0.54 ET P 2.1 Nucleotide transport and metabolism Q30 gi|17987061 BMEI0778 adk adenylate kinase 21/31 6.63/6.59 0.57 F C 2.1 Carbohydrate transport and...”
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...BOV_A0640 BCAN_B0682 PAO Cystine import IM BMEII0600 BruAb20546 BRA0683 BOV_A0639 BCAN_B0681 PAO Cystine import BP BMEII0601 BruAb20547, fliY BRA0682, fliY BOV_A0638, fliY BCAN_B0680 94 PAO Polar amino acid import IM BR0952 BCAN_A0964 PAO Polar amino acid import IM BR0953 BCAN_A0965 PAO Polar amino acid import BP...”
BRA0682 amino acid ABC transporter, periplasmic amino acid-binding protein from Brucella suis 1330
BOV_A0638 amino acid ABC transporter, periplasmic amino acid-binding protein from Brucella ovis ATCC 25840
BCAN_B0680 extracellular solute-binding protein family 3 from Brucella canis ATCC 23365
32% identity, 87% coverage
- Large scale immune profiling of infected humans and goats reveals differential recognition of Brucella melitensis antigens
Liang, PLoS neglected tropical diseases 2010 - “...Hydrolase Serodiagnostic for Goats only BMEII0988 BAB2_0943 BRA0260 0.942 Copper-containing nitrite reductase NirK BMEII0601 BAB2_0558 BRA0682 0.917 ABC amino acid transporter, periplasmic binding protein BMEII0073 BAB2_0019 BRA0020 1.000 Hypothetical protein BMEI0668 BAB2_0441 BRA0797 1.000 Calcium binding protein Asp24 {Lin, 1995} BMEII0734 BAB2_0699 BRA0538 0.983 Oligopeptide binding...”
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...Cystine import IM BMEII0600 BruAb20546 BRA0683 BOV_A0639 BCAN_B0681 PAO Cystine import BP BMEII0601 BruAb20547, fliY BRA0682, fliY BOV_A0638, fliY BCAN_B0680 94 PAO Polar amino acid import IM BR0952 BCAN_A0964 PAO Polar amino acid import IM BR0953 BCAN_A0965 PAO Polar amino acid import BP BMEI1104 BR0955 BOV_0854...”
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...IM BMEII0600 BruAb20546 BRA0683 BOV_A0639 BCAN_B0681 PAO Cystine import BP BMEII0601 BruAb20547, fliY BRA0682, fliY BOV_A0638, fliY BCAN_B0680 94 PAO Polar amino acid import IM BR0952 BCAN_A0964 PAO Polar amino acid import IM BR0953 BCAN_A0965 PAO Polar amino acid import BP BMEI1104 BR0955 BOV_0854 95 PAO...”
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...BruAb20546 BRA0683 BOV_A0639 BCAN_B0681 PAO Cystine import BP BMEII0601 BruAb20547, fliY BRA0682, fliY BOV_A0638, fliY BCAN_B0680 94 PAO Polar amino acid import IM BR0952 BCAN_A0964 PAO Polar amino acid import IM BR0953 BCAN_A0965 PAO Polar amino acid import BP BMEI1104 BR0955 BOV_0854 95 PAO Polar amino...”
5orgA / P0A4F8 Structure of the periplasmic binding protein (pbp) occj from a. Tumefaciens b6 in complex with octopine. (see paper)
29% identity, 87% coverage
Teth39_1765 extracellular solute-binding protein from Thermoanaerobacter ethanolicus ATCC 33223
32% identity, 94% coverage
STM1954 putative periplasmic binding transport protein from Salmonella typhimurium LT2
NP_460907 putative periplasmic binding transport protein from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
31% identity, 95% coverage
- The transcript from the σ(28)-dependent promoter is translationally inert in the expression of the σ(28)-encoding gene fliA in the fliAZ operon of Salmonella enterica serovar Typhimurium
Tanabe, Journal of bacteriology 2011 - “...Downstream of these two genes exists another gene, STM1954, which can be transcribed together with these two genes. However, STM1954 is also expressed from...”
- “...published reports (1, 14, 27, 28, 31, 45, 46). STM1954 has also been called fliY (38). (B) The nucleotide sequence of the regulatory region of the fliAZ...”
- Mass spectrometry-based quantitative proteomic analysis of Salmonella enterica serovar Enteritidis protein expression upon exposure to hydrogen peroxide
Kim, BMC microbiology 2010 - “...STM1886 Glucose-6-phosphate 1-dehydrogenase zwf 55.92 5.52 26% STM1923 Chemotaxis protein motA motA 32.08 5.47 31% STM1954 Cystine-binding periplasmic protein precursor fliY 28.79 8.81 23% STM1959 Flagellin fliC 51.62 4.79 56% STM2104 Phosphomannomutase in colanic acid gene cluster cpsG 50.02 5.18 20% STM2167 NADH independent D-lactate dehydrogenase...”
- “...treA 25 3% STM1886 Glucose-6-phosphate 1-dehydrogenase zwf 0% STM1923 Chemotaxis protein motA motA 14 3% STM1954 Cystine-binding periplasmic protein precursor fliY 9 2% STM1959 Flagellin fliC 0% STM2104 Phosphomannomutase in colanic acid gene cluster cpsG 23 6% STM2167 NADH independent D-lactate dehydrogenase dld 16 5% STM2190...”
- Comparative proteomic analysis of Salmonella enterica serovar Typhimurium ppGpp-deficient mutant to identify a novel virulence protein required for intracellular survival in macrophages
Haneda, BMC microbiology 2010 - “...STM1796 treA 0.7 0.002 EC b 015 STM4403 cpdB 0.6 0.011 0.25 0.06 c 027 STM1954 fliY 0.5 0.033 ND 028 STM2884 sipC 0.1 0.009 ND 029 STM3557 ugpB 0.4 0.019 EC 029-2 STM0748 tolB 0.4 0.019 0.25 0.03 c 037 STM0209 htrA 0.6 0.032 0.60...”
- Genomic comparisons of Salmonella enterica serovar Dublin, Agona, and Typhimurium strains recently isolated from milk filters and bovine samples from Ireland, using a Salmonella microarray
Reen, Applied and environmental microbiology 2005 - “...protein in the flagella. Most of the fli operon (STM1954 to STM1981) was predominantly present in all serovar Agona and Dublin isolates examined; the exception...”
- Multiple promoters contribute to swarming and the coordination of transcription with flagellar assembly in Salmonella.
Wozniak, Journal of bacteriology 2010 - GeneRIF: The fliAZY class 3 promoter lowered class 3 transcription in stationary phase.
PSPTO5180 cystine ABC transporter, periplasmic cystine binding protein from Pseudomonas syringae pv. tomato str. DC3000
32% identity, 91% coverage
PAU_03993 similar to amino acid abc transporter from Photorhabdus asymbiotica
31% identity, 87% coverage
- From Insect to Man: Photorhabdus Sheds Light on the Emergence of Human Pathogenicity
Mulley, PloS one 2015 - “...), four solute-binding proteins of OppA-like oligopeptide ABC transporters, a predicted amino acid ABC transporter (PAU_03993) and several proteases/peptidases (D-aminopeptidase, enhancin and a putative thermostable carboxypeptidase (PAU_00753). We also note the up regulation of several genes involved in linking amino acids to central metabolism ( asnA...”
- “...in amino acid / peptide acquisition and metabolism. These include a putative amino acid transporter (PAU_03993), a leucyl-aminopeptidase-T homologue (PAU_01923), a putative thermostable carboxypeptidase (PAU_00753), D-aminopeptidase DmpA (PAU_02203) and three solute-binding proteins of OppA-like oligopeptide ABC transporters (PAU_02032, 02337 and 02342). Interestingly we also see up...”
blr1132 blr1132 from Bradyrhizobium japonicum USDA 110
29% identity, 72% coverage
- Hopanoid lipids promote soybean<i>-Bradyrhizobium</i> symbiosis
Pan, mBio 2024 - “...site on a cumate-inducible promoter (Pcu). This vector then was integrated into the symbiotically silent blr1132 locus in the B. diazoefficiens genome. Finally, the endogenous shc gene ( blr3004 ) was deleted in the presence of cumate (under which the copy of shc on the pRJPcu-...”
Bcep1808_0449 extracellular solute-binding protein from Burkholderia vietnamiensis G4
28% identity, 85% coverage
- Differential Expression and PAH Degradation: What Burkholderia vietnamiensis G4 Can Tell Us?
Cauduro, International journal of microbiology 2020 - “...Bcep1808_3705, and Bcep1808_3471), described by Higgins et al. [ 51 ], the extracellular solute-binding protein (Bcep1808_0449, Bcep1808_4396, Bcep1808_3706, and Bcep1808_5569), and the oxidoreductase FAD-binding subunit (Bcep1808_3415). The latter plays an important role in electron chain flow regulation, linked to a larger metabolic system where the use...”
Q9HUA7 Probable binding protein component of ABC transporter from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
PA5076 probable binding protein component of ABC transporter from Pseudomonas aeruginosa PAO1
31% identity, 94% coverage
- Proteome-wide identification of druggable targets and inhibitors for multidrug-resistant <i>Pseudomonas aeruginosa</i> using an integrative subtractive proteomics and virtual screening approach
Vemula, Heliyon 2025 - A Shaving Proteomic Approach to Unveil Surface Proteins Modulation of Multi-Drug Resistant Pseudomonas aeruginosa Strains Isolated From Cystic Fibrosis Patients
Montemari, Frontiers in medicine 2022 - “...of ABC sugar transporter 4.538 Q9HU87 PA5096 Probable binding protein component of ABC transporter 100 Q9HUA7 PA5076 Probable binding protein component of ABC transporter 0.01 Q9HVS5 PA4496 Probable binding protein component of ABC transporter 0.396 pae02030 Bacterial chemotaxis Q9HWI6 PA4195 Probable binding protein component of ABC...”
- Phenotypes of a Pseudomonas aeruginosa hypermutator lineage that emerged during prolonged mechanical ventilation in a patient without cystic fibrosis
Nozick, mSystems 2024 - “...repair protein MutL (PA4946) H472L 14 (100%) 0 Putative binding protein component of ABC transporter (PA5076) T104A 14 (100%) 0 Hypothetical protein I62V 14 (100%) 0 Porphobilinogen deaminase (PA5260) D293G 14 (100%) 0 a *, premature stop codon. DISCUSSION Hypermutator strains have been associated with increased...”
- Emergence of a Pseudomonas aeruginosa Hypermutator Strain During the Course of Ventilator-Associated Pneumonia
Nozick, 2022 - The AhR ligand phthiocol and vitamin K analogs as Pseudomonas aeruginosa quorum sensing inhibitors
Jia, Frontiers in microbiology 2022 - “...Up-regulated: PA1224 Probable NAD(P)H dehydrogenase 1.56 fabZ 3-hydroxyacyl-[acyl-carrier-protein] dehydratase FabZ 1.39 ribH 6,7-dimethyl-8-ribityllumazine synthase 1.33 PA5076 Probable binding protein component of ABC transporter 1.32 PA4880 Probable bacterioferritin 1.29 PA4739 BON domain-containing protein 1.25 nalC NalC 1.23 speD S-adenosylmethionine decarboxylase proenzyme 1.22 ihfB Integration host factor subunit...”
- A Shaving Proteomic Approach to Unveil Surface Proteins Modulation of Multi-Drug Resistant Pseudomonas aeruginosa Strains Isolated From Cystic Fibrosis Patients
Montemari, Frontiers in medicine 2022 - “...ABC sugar transporter 4.538 Q9HU87 PA5096 Probable binding protein component of ABC transporter 100 Q9HUA7 PA5076 Probable binding protein component of ABC transporter 0.01 Q9HVS5 PA4496 Probable binding protein component of ABC transporter 0.396 pae02030 Bacterial chemotaxis Q9HWI6 PA4195 Probable binding protein component of ABC transporter...”
- Utilization of L-glutamate as a preferred or sole nutrient in Pseudomonas aeruginosa PAO1 depends on genes encoding for the enhancer-binding protein AauR, the sigma factor RpoN and the transporter complex AatJQMP
Lundgren, BMC microbiology 2021 - “...sole source of carbon but not nitrogen (Figs. 2 b and 3 b). The PA5073 PA5076 operon of P. aeruginosa PAO1 encodes for a putative glutamine ABC-transporter complex, but a previous analysis of transposon mutants indicates that this locus is not required for growth on any...”
- “...[ 26 ]. Nonetheless, it is still plausible that L-glutamine enters the cell through PA5073 PA5076 and then undergoes transamination and/or deamidation to yield L-glutamate. Another route for assimilation of L-glutamine involves deamidation in the periplasm catalyzed by the glutaminase-asparaginase AnsB (PA1337) [ 28 ] with...”
- A theoretical and experimental proteome map of Pseudomonas aeruginosa PAO1
Lecoutere, MicrobiologyOpen 2012 - “...0.001 155 PA5046 Malic enzyme C CM 45.4 47 5.05 4.99 0.736 0.001 156 * PA5076 Binding component ABC transporter ET P 29.7 27 6.85 6.00 0.770 0.141 157 PA5110 fbp Fructose bisphosphatase G U 37.2 38 5.71 5.75 0.742 0.274 158 * PA5131 pgm Phosphoglycerate...”
- “...2000 ). For some of the proteins with a lowered p I -value (PA1084, PA2800, PA5076, and PA0291), a signal peptide was predicted by SignalP. After excluding these amino acids in the sequences, the proteins theoretical masses and charges are close to the experimental values, suggesting...”
- High-throughput phenotypic characterization of Pseudomonas aeruginosa membrane transport genes
Johnson, PLoS genetics 2008 - “...PA5074 PAK glutamine ABC transporter ATP binding protein PA5075 PA01 glutamine ABC transporter membrane protein PA5076 PAK glutamine ABC transporter periplasmic binding protein PA5097 PAK proline APC family transporter PA5153 PAK amino acid (lysine/arginine/ornithine/histidine/octopine) ABC transporter periplasmic binding protein PA5155 PAK amino acid (lysine/arginine/ornithine/histidine/octopine) ABC transporter...”
- Pseudomonas aeruginosa displays multiple phenotypes during development as a biofilm
Sauer, Journal of bacteriology 2002 - “...5.98 6.41 9 11 3 PA4496 12d 60.08 7.11 13 PA0291 PA5076 12d 12d 49.67 59.74 8.67 6.85 23 7 PA0139 PA4468 PA4671 PA0263 PA0423 PA2395 PA0720 12d 12d 6d 12d 12d...”
- “...for the transport of dipeptides, oligopeptides, and nickel. PA5076, a putative glutamine transporter, belongs to class 3. Class 3 includes proteins that are...”
LMH90_018095 glutamine ABC transporter substrate-binding protein GlnH from Enterobacter hormaechei
32% identity, 96% coverage
DVU0966 amino acid ABC transporter, periplasmic amino acid-binding protein from Desulfovibrio vulgaris Hildenborough
34% identity, 89% coverage
- High-throughput isolation and characterization of untagged membrane protein complexes: outer membrane complexes of Desulfovibrio vulgaris
Walian, Journal of proteome research 2012 - “...protein DVU2482 fdnG-2, formate dehydrogenase, alpha subunit, selenocysteine-containing DVU0896 lipoprotein, NLP/P60 family DVU2496 lipoprotein, putative DVU0966 amino acid ABC transporter, periplasmic amino acid-binding protein DVU2579 TPR domain protein DVU0995 ThiJ/PfpI family protein DVU2752 rhodanese-like domain protein DVU1012 hemolysin-type calcium-binding repeat protein DVU2806 MotA/TolQ/ExbB proton channel family...”
- Cell-wide responses to low-oxygen exposure in Desulfovibrio vulgaris Hildenborough
Mukhopadhyay, Journal of bacteriology 2007 - “...DVU0095 DVU0107 DVU0169 DVU0386 DVU0547 DVU0675 DVU0712 DVU0752 DVU0966 DVU1238 DVU1937 DVU2297 DVU2342 DVU3162 dnaK htrA groEL groES zraP potD-1 Polyamine ABC...”
- Energetic consequences of nitrite stress in Desulfovibrio vulgaris Hildenborough, inferred from global transcriptional analysis
He, Applied and environmental microbiology 2006 - “...DVU0106 DVU0107 DVU0388 DVU0624 DVU0625 DVU0751 DVU0752 DVU0966 DVU0967 DVU0968 DVU1026 DVU1237 DVU1238 DVU1766 DVU2113 DVU2242 DVU2543 DVU3392 Expression ratio...”
- Global analysis of heat shock response in Desulfovibrio vulgaris Hildenborough
Chhabra, Journal of bacteriology 2006 - “...those for amino acids (DVU0712 and DVU0966), polyamines (DVU0095), molybdenum (DVU0177), and phosphate (DVU2667) displaying increased expression ratios...”
- “...DVU2548 DVU2643 DVU2744 DVU0095 DVU0177 DVU0712 DVU0745 DVU0966 DVU1932 DVU2667 DVU3245 DVU0322 DVU0386 DVU0415 DVU0750 DVU0851 DVU0978 DVU1976 DVU1977 DVU2138...”
SENTW_1129 cystine ABC transporter substrate-binding protein from Salmonella enterica subsp. enterica serovar Weltevreden str.
31% identity, 95% coverage
Dde_0168 Periplasmic glutamine-binding protein; permease from Desulfovibrio desulfuricans G20
31% identity, 97% coverage
- Shotgun proteomic analysis of nanoparticle-synthesizing Desulfovibrio alaskensis in response to platinum and palladium
Capeness, Microbiology (Reading, England) 2019 - “...subunit 1.68 Export mechanism Other Dde_1618 NAD(P)H dehydrogenase (quinone) 1.67 Dde_3627 Outer-membrane efflux protein 5.62 Dde_0168 ABC-type transporter, periplasmic subunit family 3 3.86 Dde_2641 Hybrid cluster protein 1.64 Dde_1415 Type I secretion outer-membrane protein, TolC family 2.78 Dde_1279 Methyl-accepting chemotaxis sensory transducer with Pas/Pac sensor 2.23...”
- “...metal nanoparticles of a specific size. Initially, six proteins were targeted, (Dde_0806, Dde_1442, Dde_2315, Dde_0444, Dde_0168 and Dde_2137), of which two were unable to be sub-cloned into the pMO9075 plasmid into E. coli (Dde_0444, Dde_0806), and three gave no change in the resistance to their respective...”
SAR11_1210 ABC transporter from Candidatus Pelagibacter ubique HTCC1062
30% identity, 80% coverage
3tqlA / Q83E49 Structure of the amino acid abc transporter, periplasmic amino acid- binding protein from coxiella burnetii. (see paper)
30% identity, 86% coverage
8hqrA / Q4FLC2 Crystal structure of the arginine-/lysine-binding protein sar11_1210 from 'candidatus pelagibacter ubique' htcc1062 bound to arginine (see paper)
30% identity, 88% coverage
B1917_RS12575 amino acid ABC transporter substrate-binding protein from Bordetella pertussis B1917
BP1364 putative amino-acid ABC transporter, periplasmic amino acid-binding protein from Bordetella pertussis Tohama I
30% identity, 92% coverage
- Towards comprehensive understanding of bacterial genetic diversity: large-scale amplifications in Bordetella pertussis and Mycobacterium tuberculosis
Abrahams, Microbial genomics 2022 - “...flaG ). This hotspot also contained genes predicted to encode an ABC-type amino acid transporter (B1917_RS12575, B1917_RS12580 and B1917_RS12585), the periplasmic substrate binding domain of which is homologous to annotated transporters of cystine in the Conserved Domain Database. Amplification at hotspot 2 was observed in 57...”
- Deep longitudinal multi-omics analysis of Bordetella pertussis cultivated in bioreactors highlights medium starvations and transitory metabolisms, associated to vaccine antigen biosynthesis variations and global virulence regulation
Anziani, Frontiers in microbiology 2023 - “...transcriptomic level. Transcription profiles of cysteine ABC transporter genes ( bp1362 , bp1363 , and bp1364 ) showed an upregulation (log 2 FC=+2.9 to log 2 FC=+4.0) between 4 and 8 h after inoculation. A differential gene expression analysis, between 4 and 8 h of culture,...”
- “.... 99 6.05E-15 6.97 bp3097 CGNR zinc finger domain-containing protein 3 . 88 1.68E-10 7.15 bp1364 Amino acid ABC transporter substrate-binding protein 3 . 57 7.07E-14 9.63 bp3432 cysI Nitrite/sulfite reductase (EC 1.8.7.1) 3 . 41 6.65E-15 8.73 bp3094 modB Molybdate ABC transporter permease subunit 3...”
- Differentially expressed genes in Bordetella pertussis strains belonging to a lineage which recently spread globally
de, PloS one 2014 - “...Cm 3.6 * 3.4 BP1363 amino-acid ABC transporter, permease protein Cm 6.2 * 4.4 3.2 BP1364 amino-acid ABC transporter, periplasmic amino acid-binding protein P 4.2 * 1.8 2.7 1.7 1.1 BP1908 cysS cysteinyl-tRNA synthetase C 1.5 1.3 1.5 1.9 1.3 BP2416 cysB LysR-family transcriptional regulator C...”
P49618 Arginine-binding periplasmic protein from Mannheimia haemolytica
31% identity, 97% coverage
- Analysis of gene order data supports vertical inheritance of the leukotoxin operon and genome rearrangements in the 5' flanking region in genus Mannheimia
Larsen, BMC evolutionary biology 2007 - “...already available in SWISS-PROT (Table 2 ). The SWISS-PROT entry for the LapT protein [SWISS-PROT: P49618 ] showed that it is annotated as "arginine-binding periplasmic protein". PSI-BLAST searches of the COG database revealed that LapT belongs to COG0834 (annotated as "ABC-type amino acid transport/signal transduction systems,...”
- “...225 [SWISS-PROT: P32181 ] 2990 Uncharacterized protein conserved in bacteria artI / artJ 237 [SWISS-PROT: P49618 ] 0834 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain xylA 439 2115 Xylose isomerase xylB 484 1070 Sugar (pentulose and hexulose) kinases The LapB protein [SWISS-PROT: P32181 ] is...”
BMEI1022 ARGININE/ORNITHINE-BINDING PERIPLASMIC PROTEIN PRECURSOR from Brucella melitensis 16M
41% identity, 50% coverage
- The arginine/ornithine binding protein ArgT plays an essential role in Brucella neotomae/Brucella melitensis to prevent intracellular killing and contribute to chronic persistence in the host
Mallik, Virulence 2024 - “...Fig. S1d). Sequence analysis indicated that the gene disrupted by Himar1 transposon was homologous to BMEI1022 of B. melitensis , which has been reported as an arginine/ornithine-binding periplasmic protein precursor ( ArgT ) (Suppl. Fig. S1e). The ArgT belongs to the ATP-Binding Cassette (ABC) transporter complex,...”
- “...to survive in the host. Our transposon-based screening identified the arginine/ornithine-binding periplasmic protein precursor ArgT (BMEI1022 in B. melitensis ) as a virulence determinant of Brucella and the deletion of ArgT affected the survival of B. neotomae and B. melitensis in macrophages and mice. ArgT is...”
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...90 PAO Arginine/Ornithine biding protein precursor BP BruAb20594 BOV_A0594 PAO Arginine/Ornithine biding protein precursor BP BMEI1022 BruAb20595 BRA0632 BOV_A0593 PAO Arginine/Ornithine biding protein precursor BP BruAb10874 BRA0631 BOV_0945 BCAN_A0967 91 PAO General L-amino acid import ABC BMEI1208, appP BruAb10762 BR0745 BOV_A0890 BCAN_A0760 PAO General L-amino acid...”
HD0812 arginine ABC transporter, periplasmic-binding protein from Haemophilus ducreyi 35000HP
30% identity, 96% coverage
YPO2512 putative glutamine-binding periplasmic protein from Yersinia pestis CO92
YPK_1600 cationic amino acid ABC transporter, periplasmic binding protein from Yersinia pseudotuberculosis YPIII
33% identity, 87% coverage
- Growth of Yersinia pseudotuberculosis in human plasma: impacts on virulence and metabolic gene expression
Rosso, BMC microbiology 2008 - “...peptidase T 0.488 (0.007) YPTB2548 (glnH) YPO2511 putative glutamine-binding periplasmic protein 1.797 (0.014) YPTB2549 (glnP) YPO2512 putative glutamine transport system permease 1.704 (0.024) YPTB2550 (glnQ) YPO2513 putative glutamine transport ATP-binding protein 1.56 (0.027) YPTB2632 (aroC) YPO2751 chorismate synthase 0.675 (0.031) YPTB2698 YPO2975 putative aminotransferase 2.151 (<...”
- Genome-Scale Mapping Reveals Complex Regulatory Activities of RpoN in Yersinia pseudotuberculosis
Mahmud, mSystems 2020 - “...9.7 CTGGCACGATTACTGCAA + 10.75 54,70 YPK_1538 69 IGS8 1770585 5.9 4.4 7.3 CTGGCACGATCTTTTCAT 10.32 70,54 YPK_1600 E,S 23 IGS9 2092867 16.8 8.4 6.5 TGGGCACGCATTTTGCCT 10.54 70,28,54 YPK_1886 28, 127 IGS10 2101765 16.5 15.0 13.5 TTGGCACGACTCTTGATT + 11.44 70,54 YPK_1894 E,S,V 37 IGS11 2153679 4.7 5.4 NA...”
- “...E. coli , S . Typhimurium, and V. cholerae , for example, YPK_2229, YPK_2908, and YPK_1600, with orthologs in E. coli and S. Typhimurium ( Table3 ). There were also many novel binding sites identified in Y. pseudotuberculosis , where a majority were intragenic with some...”
- Environmental Regulation of Yersinia Pathophysiology
Chen, Frontiers in cellular and infection microbiology 2016 - “...( malM YPK_0382), 50S ribosomal protein L9 ( rpll YPK_3781), Glutamine ABC transporter ( glnH YPK_1600), and an uncharacterized protein likely involved in high-affinity Fe 2+ transport (YPK_2251; Lu et al., 2012 ). The putative protein targets with the strongest negative modulation include polynucleotide phosphorylase /...”
FN1187 Amino acid-binding protein from Fusobacterium nucleatum subsp. nucleatum ATCC 25586
34% identity, 87% coverage
- Proteomics of Fusobacterium nucleatum within a model developing oral microbial community
Hendrickson, MicrobiologyOpen 2014 - “...FN0660, FN0685, FN0695, FN0793, FN0800, FN0801, FN0827, FN0828, FN1022, FN1080, FN1086, FN1135, FN1136, FN1166, FN1167, FN1187, FN1190, FN1198, FN1256, FN1301, FN1348, FN1349, FN1352, FN1353, FN1354, FN1362, FN1363, FN1398, FN1420, FN1432, FN1480, FN1525, FN1701, FN1734, FN1735, FN1737, FN1738, FN1739, FN1740, FN1741, FN1797, FN1798, FN1801, FN1811, FN1833, FN1834,...”
- “...FN0828, FN1080, FN1301, FN1348, FN1349, FN1352, FN1353, FN1354, FN1701,FN2102. 3 Covers FN0660, FN0793, FN0800, FN0801, FN1187, FN1398, FN1432, FN1801. 4 Covers FN0192, FN0396, FN0397, FN0399, FN0400, FN0998, FN1111, FN1359, FN1362, FN1363, FN1523, FN1525. 5 Covers FN0308, FN0309, FN0310, FN0375, FN0376, FN0377. In contrast to FnSg, FnPg...”
WS0279 BINDING COMPONENT OF ABC TRANSPORTER from Wolinella succinogenes DSM 1740
Q7MAG0 BINDING COMPONENT OF ABC TRANSPORTER from Wolinella succinogenes (strain ATCC 29543 / DSM 1740 / CCUG 13145 / JCM 31913 / LMG 7466 / NCTC 11488 / FDC 602W)
32% identity, 85% coverage
- Enzyme dynamics: Looking beyond a single structure
Agarwal, ChemCatChem 2020 - “...investigators used the approach of ancestral reconstruction to obtain 5 proteins between W. succinogenes AABP (Ws0279) and Pseudomonas aeruginosa CDT (PaCDT), which share the same structural fold (periplasmic binding protein-like II fold) but only show 26% sequence identity. Ancestral reconstruction is based on determining critical branching...”
- The role of oligomerization in the optimization of cyclohexadienyl dehydratase conformational dynamics and catalytic activity.
East, Protein science : a publication of the Protein Society 2022 - “...extant proteins are shown next to the clades in which they are found: Ws0279 (UniProt: Q7MAG0), Pu1068 (UniProt: Q4FLR5), Ea1174 (UniProt: K0ABP5), Ei3690 (UniProt: C5B978), and Mn4388 (UniProt: B8IBK5). (b) A zoomin of the phylogenetic tree shown in (a), highlighting the extant CDT homologs and internal...”
- “...consequence of the GoldenGate assembly method that was used. For oligomeric characterization of Ws0279 (UniProt: Q7MAG0; residues 24258) and Ea1174 (UniProt: K0ABP5; residues 31268), pDOTS7 vectors encoding the proteins were obtained from our previous work. 21 Similarly, AncCDT5(WAG) was characterized by expressing it from a pDOTS7...”
3k4uE / Q7MAG0 Crystal structure of putative binding component of abc transporter from wolinella succinogenes dsm 1740 complexed with lysine
32% identity, 87% coverage
A9497_03405 ABC transporter substrate-binding protein/permease from Streptococcus thermophilus
31% identity, 30% coverage
- Technological and Genomic Analysis of Roles of the Cell-Envelope Protease PrtS in Yoghurt Starter Development
Tian, International journal of molecular sciences 2018 - “...protein Amino acid A9497_00725 A9497_04145 AKL23_RS04220 AKL23_RS07755 ATP-binding cassette (ABC) transporter ATP-binding protein A9497_00720 A9497_04150 A9497_03405 A9497_03795 AKL23_RS04215 AKL23_RS07760 AKL23_RS07020 AKL23_RS07405 ABC transporter permease A9497_04155 A9497_03360 A9497_03370 A9497_07620 AKL23_RS07765 AKL23_RS06975 AKL23_RS06985 AKL23_RS06990 ABC transporter substrate-binding protein A9497_03375 A9497_03785 A9497_07595 AKL23_RS07395 AKL23_RS01465 AKL23_RS01490 Amino acid A9497_08630 AKL23_RS02545...”
AKL23_RS07020 ABC transporter substrate-binding protein/permease from Streptococcus thermophilus
31% identity, 30% coverage
- Technological and Genomic Analysis of Roles of the Cell-Envelope Protease PrtS in Yoghurt Starter Development
Tian, International journal of molecular sciences 2018 - “...A9497_04145 AKL23_RS04220 AKL23_RS07755 ATP-binding cassette (ABC) transporter ATP-binding protein A9497_00720 A9497_04150 A9497_03405 A9497_03795 AKL23_RS04215 AKL23_RS07760 AKL23_RS07020 AKL23_RS07405 ABC transporter permease A9497_04155 A9497_03360 A9497_03370 A9497_07620 AKL23_RS07765 AKL23_RS06975 AKL23_RS06985 AKL23_RS06990 ABC transporter substrate-binding protein A9497_03375 A9497_03785 A9497_07595 AKL23_RS07395 AKL23_RS01465 AKL23_RS01490 Amino acid A9497_08630 AKL23_RS02545 Transporter A9497_02760 A9497_03620 A9497_09055...”
BOV_0945 amino acid ABC transporter, periplasmic amino acid-binding protein from Brucella ovis ATCC 25840
40% identity, 52% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...protein precursor BP BMEI1022 BruAb20595 BRA0632 BOV_A0593 PAO Arginine/Ornithine biding protein precursor BP BruAb10874 BRA0631 BOV_0945 BCAN_A0967 91 PAO General L-amino acid import ABC BMEI1208, appP BruAb10762 BR0745 BOV_A0890 BCAN_A0760 PAO General L-amino acid import IM BMEI1209, appM BruAb10758 BR0744 BOV_0739 BCAN_A0759 PAO General L-amino acid...”
8vi8A / C3THM2 Engineered glutamine binding protein and a cobaloxime ligand - no gln bound (see paper)
33% identity, 87% coverage
- Ligand: azidobis (dimethylglyoximato) pyridinecobalt (8vi8A)
Q72F29 Amino acid ABC transporter, periplasmic amino acid-binding protein from Nitratidesulfovibrio vulgaris (strain ATCC 29579 / DSM 644 / CCUG 34227 / NCIMB 8303 / VKM B-1760 / Hildenborough)
DVU0386 amino acid ABC transporter, periplasmic amino acid-binding protein from Desulfovibrio vulgaris Hildenborough
30% identity, 97% coverage
- Synergy of Sodium Nitroprusside and Nitrate in Inhibiting the Activity of Sulfate Reducing Bacteria in Oil-Containing Bioreactors.
Fida, Frontiers in microbiology 2018 - “...(Q72CH7, Q72DH2, Q72CF7, Q728R7, Q728R8, Q72CS2, Q72DQ5, and Q72CF6), periplasmic-binding amino acid transporters (Q72E67, Q72F28, Q72F29, Q72EN0, Q72FN6, Q729Q3, and Q72CP5), tryptophan synthase (Q72EU7, Q72EU8, and Q72FX8), anthranilate synthase (Q72EV0, Q72EV1, Q72EV2, and Q72EV3), and antibiotic resistance proteins such as the small multidrug resistance family (Q729L9)...”
- Functional characterization of Crp/Fnr-type global transcriptional regulators in Desulfovibrio vulgaris Hildenborough
Zhou, Applied and environmental microbiology 2012 - “...vulgaris. (i) Amino acid transport and metabolism. glnH (DVU0386) encoding an amino acid ABC transporter was found significantly upregulated in three mutants,...”
- “...metabolism DVU0465 DVU0466 DVU0467 DVU0468 DVU0469 DVU0470 DVU0471 DVU0386 Log2 R (mutant/wild type)a Annotation JW9007 JW9009 JW9011 JW9013 trpE trpG trpD trpC...”
- Cell-wide responses to low-oxygen exposure in Desulfovibrio vulgaris Hildenborough
Mukhopadhyay, Journal of bacteriology 2007 - “...of ABC transport systems DVU0095 DVU0107 DVU0169 DVU0386 DVU0547 DVU0675 DVU0712 DVU0752 DVU0966 DVU1238 DVU1937 DVU2297 DVU2342 DVU3162 dnaK htrA groEL...”
- Global analysis of heat shock response in Desulfovibrio vulgaris Hildenborough
Chhabra, Journal of bacteriology 2006 - “...D. vulgarisa Description Log2R DVU0105 DVU0162 DVU0305 DVU0386 DVU0402 DVU0403 DVU0405 DVU0456 DVU0846 DVU0847 DVU0849 DVU0850 DVU1067 DVU1069 DVU1070 DVU1286...”
- “...DVU0712 DVU0745 DVU0966 DVU1932 DVU2667 DVU3245 DVU0322 DVU0386 DVU0415 DVU0750 DVU0851 DVU0978 DVU1976 DVU1977 DVU2138 DVU2427 DVU2649 DVU3061 DVU3150...”
DR_B0078 amino acid ABC transporter, periplasmic amino acid binding protein from Deinococcus radiodurans R1
35% identity, 69% coverage
- Structural Differences between the Genomes of Deinococcus radiodurans Strains from Different Laboratories
Zahradka, Genes 2024 - “...DR_A0268, adenine deaminase-related protein, [ii]complement(524..880), DR_A0269, hypothetical protein 48 genome-1999 Megaplasmid 96697 59 bp [i]complement(32..>48), DR_B0078, this region contains authentic frameshift * The GenBank annotation includes the position of the affected gene in a specific GenBank format, which is best understood through examples, e.g., 1302..>1322. In...”
RPA4686 possible ABC transporter, periplasmic amino acid-binding protein from Rhodopseudomonas palustris CGA009
27% identity, 86% coverage
- Environment sensing and response mediated by ABC transporters
Giuliani, BMC genomics 2011 - “...2112, 2359, 2308, 4164) or from sequence homology predicting a periplasmic binding protein (PBP) domain (RPA4686, 1389, 3707). RPA3707 is annotated as a "nitrate transporter component nrtA" and categorized as an ATPase by TransportDB. Though it is part of an operon with the gene RPA3706, coding...”
- “...This group represents a heterogeneous mix annotated as solute binding (RPA0860, RPA0884, RPA1385, RPA2410, and RPA4686), efflux pump associated (RPA0681 and RPA4088), or hypothetical (RPA4236) proteins. One protein in this cluster (RPA0860) was predicted as a metal binding protein by TransportDB (Table 1). For the most...”
YPTB1718 putative cystine-binding periplasmic protein from Yersinia pseudotuberculosis IP 32953
28% identity, 94% coverage
- IscR is essential for yersinia pseudotuberculosis type III secretion and virulence
Miller, PLoS pathogens 2014 - “...modulation factor yhbH 2.1 Transport and Binding Proteins (9) YPTB0306 putative sodium:phenylacetate symporter actP 2.4 YPTB1718 putative cystine-binding periplasmic protein fliY 2.4 YPTB2463 PTS system, glucose-specific IIBC component ptsG 2.0 YPTB2682 ABC transporter, periplasmic iron(III)-binding protein sfuA 2.6 YPTB2717 PTS system glucose-specific IIA component, permease crr...”
ABD05_RS30720 ABC transporter substrate-binding protein from Burkholderia pyrrocinia
31% identity, 90% coverage
BPHYT_RS24000 L-histidine ABC transporter, substrate-binding component from Burkholderia phytofirmans PsJN
30% identity, 80% coverage
- mutant phenotype: Specifically important for histidine utilization.
RSP_0372 ABC basic amino acid transporter, solute-binding protein from Rhodobacter sphaeroides 2.4.1
28% identity, 88% coverage
Bcep1808_5569 extracellular solute-binding protein from Burkholderia vietnamiensis G4
28% identity, 80% coverage
TC 3.A.1.3.17 / Q8YSA2 Basic amino acid uptake transporter, BgtAB (see paper)
alr3187 glutamine-binding periplasmic protein of glutamine ABC transporter from Nostoc sp. PCC 7120
30% identity, 49% coverage
- substrates: Arginine, Histidine, lysine
- Amino Acid Transporters and Release of Hydrophobic Amino Acids in the Heterocyst-Forming Cyanobacterium Anabaena sp. Strain PCC 7120
Pernil, Life (Basel, Switzerland) 2015 - “...Bgt 3.A.1.3 Lys , Arg , Orn, alr4167 bgtA ATPase [ 28 ] His, Gln alr3187 bgtB PSB and TM N-III 3.A.1.4 Gly , Pro, Glu, alr2535 natI PSB This work Phe, Leu, Ala, alr2536 natJ TM Gln alr2538 natK TM alr2539 natL ATPase alr2541 natM...”
- “...[ 28 ]. The third one, the system Bgt, is the product of bgtB ( alr3187 ), which encodes a permease protein with an extended periplasmic domain with homology to substrate binding proteins, and bgtA ( alr4167 ), which encodes an ATPase that is shared with...”
- Functional Dependence between Septal Protein SepJ from Anabaena sp. Strain PCC 7120 and an Amino Acid ABC-Type Uptake Transporter
Escudero, Journal of bacteriology 2015 - “...all1046 alr1834 all1047 all1248 all2912 alr4164 alr4165 alr4166 alr4167 alr3187 1893 1861 1894 2177 0815 0246 0247 0248 0249 0248 e96 e109 e99 e93 e78 e106 e58...”
DR2610 amino acid ABC transporter, periplasmic amino acid-binding protein from Deinococcus radiodurans R1
29% identity, 96% coverage
- Conservation of the binding site for the arginine repressor in all bacterial lineages
Makarova, Genome biology 2001 - “...cgtAATTgATATTCAT TM1873 -91 4.44 ATttATTTAAcTTaAT D. radiodurans DR0080 -57 4.11 cTGtATTTcTATaCAg DR0674-78 -131 4.09 tTGcATAgtcATTCAT DR2610 -85 3.62 ATGgATTgAAATcCAg -62 3.69 cTGgATTTtAAggaAT C. pneumoniae glnPQ -53 4.26 tTGcATAaATATgatT -32 4.64 ATaAATAaATATgCAT artJ -112 3.92 tTtAATcaAAATTatT 27 3.96 ATttATTTtTATaatg M. tuberculosis Rv1652-59 -11 3.91 tTGcATAacgATgCAa Position is...”
Ac3H11_2555 ABC transporter for L-Histidine, periplasmic substrate-binding component 1 from Acidovorax sp. GW101-3H11
29% identity, 87% coverage
- mutant phenotype: Specific phenotype on L-Histidine. Do not understand why there seem to be two substrate binding proteins for this ABC transporter. Both SBPs have signal peptides, so they seem unlikely to be involved in efflux of a waste product instead.
Vpar_0358 extracellular solute-binding protein family 3 from Veillonella parvula DSM 2008
31% identity, 93% coverage
PP0227 cysteine ABC transporter, periplasmic cysteine-binding protein, putative from Pseudomonas putida KT2440
31% identity, 88% coverage
BGV84_RS01600 cystine ABC transporter substrate-binding protein from Pseudomonas aeruginosa
Q9I6H7 L-cysteine transporter of ABC system FliY from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
PA0314 probable binding protein component of ABC transporter from Pseudomonas aeruginosa PAO1
32% identity, 95% coverage
- Transcriptome Analysis Reveals the Mechanism of Y0-C10-HSL on Biofilm Formation and Motility of <i>Pseudomonas aeruginosa</i>
Tang, Pharmaceuticals (Basel, Switzerland) 2024 - “...biofilm are shown in Table 2 . The genes involved in the movement were fleP, BGV84_RS01600 , and BGV84_RS23030 . The genes associated with biofilm formation were BGV84_RS17725 , BGV84 _ RS13310 , tssC , and crp . QS-related genes were GV84_RS03095 , BGV84_RS03090 , BGV84_RS25465...”
- “...0.190985405 polyamine ABC transporter ATP-binding protein Flagellar assembly fleP 0.604913812 pili length/flagellar attachment protein FleP BGV84_RS01600 0.652319441 cystine ABC transporter substrate-binding protein BGV84_RS23030 0.697947637 RNA polymerase factor sigma-54 Biofilm formation BGV84_RS17725 0.61142072 Hcp family type VI secretion system effector BGV84_RS13310 0.761199559 Hcp family type VI secretion...”
- Proteome-wide identification of druggable targets and inhibitors for multidrug-resistant <i>Pseudomonas aeruginosa</i> using an integrative subtractive proteomics and virtual screening approach
Vemula, Heliyon 2025 - A Shaving Proteomic Approach to Unveil Surface Proteins Modulation of Multi-Drug Resistant Pseudomonas aeruginosa Strains Isolated From Cystic Fibrosis Patients
Montemari, Frontiers in medicine 2022 - “...Q9I4M3 PA1112 GSDH domain-containing protein 6.698 0.01 Q9I2Q0 tsi1 Immune protein Ts i1 4.361 6.593 Q9I6H7 PA0314 L-cysteine transporter of ABC system FliY 0.01 Q9I2N2 modA Molybdate-binding periplasmic protein ModA 0.01 0.01 pae02040 Flagellar assembly Q9HYL2 nosZ Nitrous-oxide reductase 0.01 Q9HTI6 PA5378 OpuAC domain-containing protein 0.01...”
- “...( 13 ). Regarding the flagellar assembly system, the L-cysteine transporter of ABC system FliY (Q9I6H7) was under-expressed in PDR vs. WT; the B-type flagellin (P72151) and Flagellar motor switch protein FliM (Q51465) were under-expressed in MDR vs. WT ( Supplementary Figure 1A ). Flagella structure...”
- Proteomic Analysis of Vesicle-Producing Pseudomonas aeruginosa PAO1 Exposed to X-Ray Irradiation
Zhang, Frontiers in microbiology 2020 - “...abundance Q9I706 PA0126 1.656 0.368 4.50 Uncharacterized protein Q9I6I2 PA0309 1.476 0.682 2.164 Uncharacterized protein Q9I6H7 PA0314 FliY 1.594 0.786 2.028 L-cysteine transporter of ABC system Q06552 PA0610 PrtN 1.249 0.562 2.222 Transcription regulatory protein G3XD08 PA0621 1.646 0.61 2.698 Hypothetical/phage related G3XD68 PA0634 1.747 0.288...”
- Quantitative proteomics reveals unique responses to antimicrobial treatments in clinical Pseudomonas aeruginosa isolates
Goodyear, mSystems 2023 - “...Fold difference (log 2 ) CAR c Fold difference (log 2 ) PIP d Increased PA0314 PA0314 ABC transporters 4.51 3.74 4.55 PA0315 PA0315 Hypothetical, unknown 4.37 2.71 4.17 PA0388 PA0388 Hypothetical, unknown 2.86 1.49 2.95 PA1634 KdpB Potassium ion transport 1.97 2.06 2.00 PA3227 PpiA...”
- A Shaving Proteomic Approach to Unveil Surface Proteins Modulation of Multi-Drug Resistant Pseudomonas aeruginosa Strains Isolated From Cystic Fibrosis Patients
Montemari, Frontiers in medicine 2022 - “...PA1112 GSDH domain-containing protein 6.698 0.01 Q9I2Q0 tsi1 Immune protein Ts i1 4.361 6.593 Q9I6H7 PA0314 L-cysteine transporter of ABC system FliY 0.01 Q9I2N2 modA Molybdate-binding periplasmic protein ModA 0.01 0.01 pae02040 Flagellar assembly Q9HYL2 nosZ Nitrous-oxide reductase 0.01 Q9HTI6 PA5378 OpuAC domain-containing protein 0.01 Q9HU80...”
- “...PA1443, Q51465, Flagellar motor switch protein FliM; FliC = PA1092, P72151, B-type flagellin; FliY = PA0314, Q9I6H7, L-cysteine transporter of ABC system FliY; MCP = PA0176, Q9I6V6, Aerotaxis transducer Aer2; Aer = PA1561, Q9I3F6, Aerotaxis receptor Aer; RbsB = PA1946, Q9I2F8, Binding protein component of ABC...”
- Proteomic Analysis of Vesicle-Producing Pseudomonas aeruginosa PAO1 Exposed to X-Ray Irradiation
Zhang, Frontiers in microbiology 2020 - “...Q9I706 PA0126 1.656 0.368 4.50 Uncharacterized protein Q9I6I2 PA0309 1.476 0.682 2.164 Uncharacterized protein Q9I6H7 PA0314 FliY 1.594 0.786 2.028 L-cysteine transporter of ABC system Q06552 PA0610 PrtN 1.249 0.562 2.222 Transcription regulatory protein G3XD08 PA0621 1.646 0.61 2.698 Hypothetical/phage related G3XD68 PA0634 1.747 0.288 6.066...”
- Global reprogramming of virulence and antibiotic resistance in Pseudomonas aeruginosa by a single nucleotide polymorphism in elongation factor, fusA1
Maunders, The Journal of biological chemistry 2020 (secret) - Bis-(3'-5')-cyclic dimeric GMP regulates antimicrobial peptide resistance in Pseudomonas aeruginosa
Chua, Antimicrobial agents and chemotherapy 2013 - “...PA4687 PA2413 PA4448 PA5172 PA3686 PA3922 PA2385 PA3729 PA0314 PA2445 PA0084 PA3452 PA0400 PA4138 PA4236 PA0139 PA5322 PA2944 PA3186 PA0036 PA4560 PA4938 PA0077...”
- Genome-scale metabolic network analysis of the opportunistic pathogen Pseudomonas aeruginosa PAO1
Oberhardt, Journal of bacteriology 2008 - “...L-Aspartate oxidase PA0215, PA0216 PA0313, PA0314 Conserved hypothetical protein Probable oxidase Probable Orn/Arg/Lys decarboxylase Hypothetical protein...”
- High-throughput phenotypic characterization of Pseudomonas aeruginosa membrane transport genes
Johnson, PLoS genetics 2008 - “...PA0220 PAK amino acid APC family transporter PA0313 PAK amino acid ABC transporter membrane protein PA0314 PAK amino acid ABC transporter periplasmic binding protein PA0322 PAK cationic amino acid APC family transporter PA0783 PAK proline/sodium transporter PA0789 PAK proline APC family transporter PA0866 PAK aromatic amino...”
E6B08_RS28125 transporter substrate-binding domain-containing protein from Pseudomonas putida
29% identity, 92% coverage
- A bacterial chemoreceptor that mediates chemotaxis to two different plant hormones
Rico-Jiménez, Environmental microbiology 2022 - “...) that bind both, amino acids and IAA, we purified the SBP of this transporter, E6B08_RS28125, and isothermal titration calorimetry (ITC) assays with IAA revealed no binding (Supp. Fig. S7 ). Subsequently, we used differential scanning fluorimetry (DSF) (MartinMora et al ., 2018a ) and microcalorimetric...”
- “...proteinprotein interaction assays using ITC revealed no evidence of protein complex formation between PcpILBD and E6B08_RS28125 (Supp. Fig. S9 ). To identify ligands that are directly recognized by PcpI, the LBD of PcpI was submitted to highthroughput ligand screening using DSF. We screened ~480 compounds from...”
- The pH Robustness of Bacterial Sensing
Monteagudo-Cascales, mBio 2022 - “...solute binding proteins MBP SBP E. coli K12 SBP_bac_1/PF01547 D-maltose 2.5-11.0 9.0 0.63 This study E6B08_RS28125 SBP P. putida 1290 SBP_bac_3/PF00497 L-ornithine 3.0-11.0 9.0 0.66 ( 50 ) LBDs of cytosolic location TodS-Nter SK P. putida DOT-T1E PAS_4/PF08448 Toluene 5.5-9.5 6.5 0.25 ( 96 ) AdmX-LBD...”
- “...to study SBPs ( 48 , 49 ). We have used E. coli MBP and E6B08_RS28125, an amino acid-sensing SBP of P. putida ( 50 ), as models to study the pH robustness of ligand recognition in solute-binding proteins. Like the periplasmic LBDs, MBP and E6B08_RS28125...”
CAC0380 Periplasmic amino acid-binding protein from Clostridium acetobutylicum ATCC 824
CA_C0380, CEA_G0390 ABC transporter substrate-binding protein from Clostridium acetobutylicum EA 2018
30% identity, 94% coverage
- Transcription factors and genetic circuits orchestrating the complex, multilayered response of Clostridium acetobutylicum to butanol and butyrate stress
Wang, BMC systems biology 2013 - “...novo motif prediction with MOTIFATOR [ 69 ] suggests an ArgR binding site upstream of CAC0380. CAC0380 was previously annotated as a periplasmic amino acid-binding protein, but now with our prediction of ArgR binding site for this gene, we suspect it is an arginine-binding protein with...”
- Comparative genomic and transcriptomic analysis revealed genetic characteristics related to solvent formation and xylose utilization in Clostridium acetobutylicum EA 2018
Hu, BMC genomics 2011 - “...oligopeptide-binding protein, periplasmic component CEA_G0327 CA_C0316 -4.09229 6.429377 7.957548 6.881528 4.185199 2.037144 ornithine carbomoyltransferase CEA_G0390 CA_C0380 -4.23921 5.06975 5.365591 5.142555 3.394778 2.099342 periplasmic amino acid-binding protein CEA_G0984 CA_C0973 -4.67305 6.390879 8.78089 7.141168 3.889621 2.522783 argininosuccinate synthase CEA_G0985 CA_C0974 -4.03279 6.033303 8.738086 7.66813 4.662246 3.462605 argininosuccinate lyase...”
- “...CEA_G3627 CA_C3620 -2.79225 4.869307 2.77014 4.039679 3.923914 1.658129 amino acid ABC transporter periplasmic-binding protein CEA_G0390 CA_C0380 -4.23921 5.06975 5.365591 5.142555 3.394778 2.099342 periplasmic amino acid-binding protein Energy production and convertion CEA_G1083 CA_C1072 3.271648 3.230747 4.254617 2.59071 2.723209 3.766376 Fe-S oxidoreductase CEA_G2012 CA_C1997 3.052977 3.503142 3.004392 2.8712...”
- “...3.705152 oligopeptide-binding protein, periplasmic component CEA_G0327 CA_C0316 -4.09229 6.429377 7.957548 6.881528 4.185199 2.037144 ornithine carbomoyltransferase CEA_G0390 CA_C0380 -4.23921 5.06975 5.365591 5.142555 3.394778 2.099342 periplasmic amino acid-binding protein CEA_G0984 CA_C0973 -4.67305 6.390879 8.78089 7.141168 3.889621 2.522783 argininosuccinate synthase CEA_G0985 CA_C0974 -4.03279 6.033303 8.738086 7.66813 4.662246 3.462605 argininosuccinate...”
- “...kinase CEA_G3627 CA_C3620 -2.79225 4.869307 2.77014 4.039679 3.923914 1.658129 amino acid ABC transporter periplasmic-binding protein CEA_G0390 CA_C0380 -4.23921 5.06975 5.365591 5.142555 3.394778 2.099342 periplasmic amino acid-binding protein Energy production and convertion CEA_G1083 CA_C1072 3.271648 3.230747 4.254617 2.59071 2.723209 3.766376 Fe-S oxidoreductase CEA_G2012 CA_C1997 3.052977 3.503142 3.004392...”
PA2204 probable binding protein component of ABC transporter from Pseudomonas aeruginosa PAO1
Q9I1R3 Probable binding protein component of ABC transporter from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
29% identity, 93% coverage
- Adsorption of extracellular proteases and pyocyanin produced by Pseudomonas aeruginosa using a macroporous magnesium oxide-templated carbon decreases cytotoxicity
Hirakawa, Current research in microbial sciences 2022 - “...3.04.E+07 Q9HU31 ABC transporter periplasmic binding protein (PA5153) 63.569 1.26.E+06 1.45.E+07 Q9I1R3 ABC transport protein (PA2204) 62.183 1.02.E+06 5.00.E+06 Q9I6J1 Putrescine-binding protein (SpuD) 61.373 3.67.E+06 5.48.E+06 Q9I5W4 Metalloprotease (ImpA) 61.116 1.17.E+07 9.64.E+06 Q9HW11 UPF0234 protein (PA4395) 59.911 3.33.E+07 1.58.E+06 Q9I457 Glutathione peroxidase (PA1287) 59.694 1.08.E+08 1.14.E+08...”
- Treatment of Pseudomonas aeruginosa infectious biofilms: Challenges and strategies
Yin, Frontiers in microbiology 2022 - “...twitching motility, and inhibiting the expression of various genes involved in biofilm formation, such as PA2204 ( de la Fuente-Nunez et al., 2012 ). Recent studies have found that the anti-biofilm peptide MC1 can inhibit biofilm formation by down-regulating the relative expression levels of pelA ,...”
- Searching for Biological Function of the Mysterious PA2504 Protein from Pseudomonas aeruginosa
Drabinska, International journal of molecular sciences 2021 - “...PA2594 and PA5103 and with the import of cysteine and methionine PA2202 , PA2203 , PA2204 , PA3931 , and PA4195 . The second group related to the conversion of sulphate to sulphite and further to sulphide: cysD, cysN , cysH , and cysI . Furthermore,...”
- “...1.12 Epoxide hydrolase PA2202 PA2202 1.79 Amino acid permease PA2203 PA2203 2.32 Amino acid permease PA2204 PA2204 3.02 ABC transporter PA2328 PA2328 0.86 Hypothetical protein/ nitrate transport protein NrtA precursor PA2329 PA2329 0.72 ABC transporter ATP-binding protein/ nitrate/sulphonate/bicarbonate ABC transporter ATPase PA2330 PA2330 0.74 Hypothetical protein/...”
- Differential transcription profiling of the phage LUZ19 infection process in different growth media
Brandão, RNA biology 2021 (secret) - The MarR-Type Regulator PA3458 Is Involved in Osmoadaptation Control in Pseudomonas aeruginosa
Kotecka, International journal of molecular sciences 2021 - “...in PA3458 and WT P. aeruginosa cells. Analysis of PA3459 , PA3461 , PA5170 , PA2204 , and PA4352 transcripts level in PA3458- deficient cells showed increased expression relatively to WT cells, while the two other tested genes PA1270 and PA2252 exhibited the decreased expression (...”
- Antimicrobial Peptides Derived From Insects Offer a Novel Therapeutic Option to Combat Biofilm: A Review
Sahoo, Frontiers in microbiology 2021 - “...Fuente-Nez et al. (2012) have shown that AMP 1037 stimulates cell proliferation of P. aeruginosa PA2204 but does not affect the motility and biofilm formation ( De La Fuente-Nez et al., 2012 ). Antimicrobial peptides NA-CATH: ATRA1-ATRA1, a synthetic cathelicidin, inhibited S. aureus biofilm form, and...”
- Gene Loss and Acquisition in Lineages of Pseudomonas aeruginosa Evolving in Cystic Fibrosis Patient Airways
Gabrielaite, mBio 2020 - “...P40M5-DK43). The 34 genes were orthologs of genes PA2161 to PA2181 and genes PA2189 to PA2204 in the PAO1 reference genome. We noted that three of the lineages (P05F4-DK13, P55M4-DK18, and P40M5-DK43) did not have genes PA2182 to PA2188 (genes flanked by PA2161 to PA2181 and...”
- “...to PA2188 were variable and congregated with genes PA2161 to PA2181 and genes PA2189 to PA2204 in the fourth lineage (P21F4-DK06), so we concluded that the 34 genes were likely lost/acquired together rather than in separate two events ( Fig.4 shows the genetic region of the...”
- Traditional Chinese Medicine Tanreqing Inhibits Quorum Sensing Systems in Pseudomonas aeruginosa
Yang, Frontiers in microbiology 2020 - “...2.9 + Hydrogen cyanide synthase HcnB PA2195 hcnC 2.4 3 + Hydrogen cyanide synthase HcnC PA2204 1.6 2.1 Probable binding protein component of ABC transporter PA2274 2.2 + Hypothetical protein PA2300 chiC 2.6 4.5 + Chitinase PA2302 ambE 2.1 + AmbE PA2303 ambD 2.1 + AmbD...”
- More
- Proteome-wide identification of druggable targets and inhibitors for multidrug-resistant <i>Pseudomonas aeruginosa</i> using an integrative subtractive proteomics and virtual screening approach
Vemula, Heliyon 2025 - Adsorption of extracellular proteases and pyocyanin produced by Pseudomonas aeruginosa using a macroporous magnesium oxide-templated carbon decreases cytotoxicity
Hirakawa, Current research in microbial sciences 2022 - “...protein (PA3302) 66.561 3.27.E+07 3.04.E+07 Q9HU31 ABC transporter periplasmic binding protein (PA5153) 63.569 1.26.E+06 1.45.E+07 Q9I1R3 ABC transport protein (PA2204) 62.183 1.02.E+06 5.00.E+06 Q9I6J1 Putrescine-binding protein (SpuD) 61.373 3.67.E+06 5.48.E+06 Q9I5W4 Metalloprotease (ImpA) 61.116 1.17.E+07 9.64.E+06 Q9HW11 UPF0234 protein (PA4395) 59.911 3.33.E+07 1.58.E+06 Q9I457 Glutathione peroxidase...”
GSU3406 amino acid ABC transporter, periplasmic amino acid-binding protein from Geobacter sulfurreducens PCA
30% identity, 97% coverage
- Anode biofilm transcriptomics reveals outer surface components essential for high density current production in Geobacter sulfurreducens fuel cells
Nevin, PloS one 2009 - “...operon with omcB 2.47 GSU2075 subtilisin Protein fate Degradation of proteins, peptides, and glycopeptides 2.08 GSU3406 amino acid ABC transporter, periplasmic amino acid-binding protein Transport and binding proteins Amino acids, peptides and amines 1.90 GSU0975 phage tail sheath protein, putative Other categories Prophage functions 1.82 GSU3402...”
- “...amino acid transport; GSU3402, encoding a hypothetical protein; and GSU3403, also encoding a hypothetical protein. GSU3406, which is also predicted to be involved in amino acid transport, had slightly higher transcript levels in current-harvesting cells. The greatest decrease in transcript level was for the outer membrane...”
- DNA microarray analysis of nitrogen fixation and Fe(III) reduction in Geobacter sulfurreducens
Methé, Applied and environmental microbiology 2005 - “...identification no. GSU1330b GSU1332b GSU0830b GSU0829b GSU0264 GSU3406 GSU3404 GSU3401 Metal ion efflux outer membrane protein family protein, putative Heavy...”
lmo1738 similar to amino acid ABC transporter (binding protein) from Listeria monocytogenes EGD-e
29% identity, 93% coverage
- Executioner caspases degrade essential mediators of pathogen-host interactions to inhibit growth of intracellular Listeria monocytogenes
Lavergne, Cell death & disease 2025 - “...bound protein A0A0H3GKR6 lmo1666 A0A0H3GKR6 [36-45] [D].DISPEISDNR.[F] Polar amino acid transport system substrate-binding protein A0A0H3GKX3 lmo1738 A0A0H3GKX3 [227-232] [D].FAVGMR.[K] A0A0H3GKX3 A0A0H3GKX3 [182-191] [D].TAFIDLNNKR.[I] A0A0H3GLZ0 A0A0H3GLZ0 [25-35] [N].AVKVTLGPKGR.[N] A0A0H3GLZ0 A0A0H3GLZ0 [488-498] [D].AGIVDPTKVTR.[S] Polar amino acid transport system substrate-binding protein A0A0H3GMT4 lmo2349 A0A0H3GMT4 [132-146] [D].SNNSINSTKDLAGKR.[V] A0A0H3GMT4 A0A0H3GMT4 [132-146]...”
- Initial Transcriptomic Response and Adaption of Listeria monocytogenes to Desiccation on Food Grade Stainless Steel
Kragh, Frontiers in microbiology 2019 - “...previously related to alkaline and oxidative stress ( Rea et al., 2004 ). Additionally the lmo1738 - 1740 operon encoding glutamine transporters was highly upregulated similarly to what was reported for acid shock, and may likely be linked to the essential role that the glutamate decarboxylase...”
- Listeria monocytogenes differential transcriptome analysis reveals temperature-dependent Agr regulation and suggests overlaps with other regulons
Garmyn, PloS one 2012 - “...included in the top 20 of genes with higher transcript levels. lmo1740 , lmo1739 and lmo1738 , are co-transcribed [18] and in silico analysis suggested it was specific to histidine [31] . The oligopeptide ABC transporters ( lmo0135 lmo0136 lmo0152 ) are structurally related to OppA...”
- Transcriptomic response of Listeria monocytogenes to iron limitation and Fur mutation
Ledala, Applied and environmental microbiology 2010 - “...4.68 8.31 -- -- 2.45 6.01 Transport and binding proteins lmo1738 lmo1739 lmo2251 a Numbers in the fold value column are ratios of expression levels in the fur...”
- “...amino acid transport genes of the ABC type, lmo1738, lmo1739, and lmo2251, were induced under low-iron conditions. lmo2251 belongs to an operon consisting of...”
- Inactivation of Lgt allows systematic characterization of lipoproteins from Listeria monocytogenes
Baumgärtner, Journal of bacteriology 2007 - “...Western Western Lmo2636 Lmo1757 Lmo2431 Lmo0541 Lmo1847 Lmo1738 Lmo2416 Lmo1800 Lmo2595 OppA Similar to oligopeptide-binding lipoproteins, ABC transport system...”
- Listeria monocytogenes surface proteins: from genome predictions to function
Bierne, Microbiology and molecular biology reviews : MMBR 2007 - “...Lmo1016 Lmo1041 Lmo1073 Lmo1388 Lmo1426 Lmo1671 Lmo1730 Lmo1738 Lmo1847 Lmo1959 Lmo2007 Lmo2125 Lmo2184 Lmo2196 Lmo2349 Lmo2417 Lmo2431 Lmo2499 Lmo2569 Lmo2839...”
NP_387380, SMc03891 PUTATIVE AMINO ACID-BINDING PERIPLASMIC ABC TRANSPORTER PROTEIN from Sinorhizobium meliloti 1021
31% identity, 87% coverage
CAC3325 Periplasmic amino acid binding protein from Clostridium acetobutylicum ATCC 824
CA_C3325, CEA_G3328 amino acid ABC transporter substrate-binding protein from Clostridium acetobutylicum EA 2018
31% identity, 84% coverage
CJJ81176_0757 cjaC protein from Campylobacter jejuni subsp. jejuni 81-176
30% identity, 95% coverage
Pput_0242 cystine transporter subunit from Pseudomonas putida F1
31% identity, 88% coverage
4ymxA / Q8RCC4 Crystal structure of the substrate binding protein of an amino acid abc transporter (see paper)
32% identity, 85% coverage
B9H01_RS05035 ABC transporter substrate-binding protein/permease from Streptococcus suis YS1
SSU0883 glutamine ABC transporter, glutamine-binding protein/permease protein from Streptococcus suis P1/7
32% identity, 30% coverage
- Transcriptome and metabolome profiling to elucidate the mechanism underlying the poor growth of <i>Streptococcus suis</i> serotype 2 after orphan response regulator CovR deletion
Zong, Frontiers in veterinary science 2023 - “...transporter permease; B9H01_RS06580 is glutamine ABC transporter permease; B9H01_RS05040 is peptide ABC transporter ATP-binding protein; B9H01_RS05035 is amino acid ABC transporter permease; B9H01_RS09790 is ABC transporter ATP-binding protein; and B9H01_RS01490, B9H01_RS06570, and B9H01_RS09040 are ABC transporters. To begin, RNA extraction was followed as described in the...”
- “...(5 -3 ) B9H01_RS09035 GGGGCTAACAAACAGACT AAGACACCGATGAGGAGA B9H01_RS06585 CCGAGATTATCCGTGGTG GCCTCAAAGTAGCGTCCC B9H01_RS06580 TGCGTCGGACTCTATCAC TGGAAGAATGGTCGGAAT B9H01_RS05040 CCTTCCGTTCAAATGTCG CGTTGCTTCTGACCACCT B9H01_RS05035 CGTTATCGCTACCACAAA ACAGCACCAGCAGAAAGG B9H01_RS01490 TTGGCAGGACATCTATTA AGGAAACGAAACATTACTC B9H01_RS09790 AAATCGGGCAGGCTTACT CCTTACGCATACGGTTGG B9H01_RS06570 TTTTGGGAATCAATAAGGC CGGATAGCATAGCAGGGT B9H01_RS09040 CTCAATCATCGGTTCATC CACGGTAAGTCGTCAAAT 16S rRNA ACTTGAGTGCAGAAGGGGAGAG GCGTCAGTTACAGACCAGAGAGC Statistical analyses The data in this study were analyzed using SPSS (Version...”
- Identification of conditionally essential genes for Streptococcus suis infection in pigs
Arenas, Virulence 2020 - “...To obtain knockout mutants in S. suis strain 10 (SSU0114, glA , SSU0469, fhs , SSU0883, penA , SSU1501, SSU1869, SSU1940), DNA fragments corresponding to flanking regions of the genes of interest and a spectinomycin-resistance cassette were amplified from chromosomal DNA of S. suis strain 10...”
- “...transporter (Permease) 7.4 6.3 8.1 SSU1865 Metal cation ABC transporter membrane protein 4.2 2.8 4.5 SSU0883 Glutamine ABC transporter, glutamine-binding protein/permease protein 2.2 SSU1675 Glutamine ABC transporter, glutamine-binding protein/permease protein 2.3 SSU1852 Amino acid ABC transporter permease 3.8 2.5 3.7 SSU1662 oppF Oligopeptide transport ATP-binding protein...”
SSUBM407_0896 glutamine ABC transporter, glutamine-binding protein/permease protein from Streptococcus suis BM407
32% identity, 30% coverage
- Proteomic and Bioinformatic Analysis of Streptococcus suis Human Isolates: Combined Prediction of Potential Vaccine Candidates
Prados, Vaccines 2020 - “...identified. Actually, only four in this last subcategory were found in the six clinical isolates: SSUBM407_0896, SSUBM407_1298, SSUBM407_1682, and SSUBM407_1747. Interestingly, among the LPXTG cell wall proteins, we identified the major pilus protein encoded by the locus SSUBM407_0414 . Pili proteins have been shown previously to...”
- “...SSUBM407_0621 DNA translocase FtsK SSUBM407_0673 Putative glycosyl transferase SSUBM407_0687 Putative sulfatase SSUBM407_0762 Putative membrane protein SSUBM407_0896 Putative glutamine ABC transporter, glutamine-binding protein/permease protein SSUBM407_1196 Putative membrane protein SSUBM407_1297 Putative chain length determinant protein SSUBM407_1298 Integral membrane regulatory protein Wzg SSUBM407_1333 Large-conductance mechanosensitive channel SSUBM407_1406 Putative peptidoglycan...”
HSISS4_01405 ABC transporter substrate-binding protein/permease from Streptococcus salivarius
29% identity, 30% coverage
SF5M90T_1910 cystine ABC transporter substrate-binding protein from Shigella flexneri 5a str. M90T
28% identity, 94% coverage
- RNA-seq analysis of the influence of anaerobiosis and FNR on Shigella flexneri
Vergara-Irigaray, BMC genomics 2014 - “...PTS system, fructose-specific transport protein -1.99 Aminoacid transport and metabolism SF5M90T_2823 argA N-acetylglutamate synthase 1.94 SF5M90T_1910 fliY putative periplasmic binding transport protein 1.80 SF5M90T_625 ybgH peptide transporter 1.64 -1.60 -1.21 SF5M90T_292 pepD aminoacyl-histidine dipeptidase (peptidase D) 1.54 1.78 1.75 SF5M90T_2879 gcvT aminomethyltransferase 1.53 1.44 SF5M90T_284 proA...”
Cj0734c histidine-binding protein precursor from Campylobacter jejuni subsp. jejuni NCTC 11168
34% identity, 73% coverage
- Multi-Omics of Campylobacter jejuni Growth in Chicken Exudate Reveals Molecular Remodelling Associated with Altered Virulence and Survival Phenotypes
Man, Microorganisms 2024 - “...CSN depletion we observed as bacterial cell numbers grow. Alternatively, the E. coli HisJ homolog (Cj0734c CjaC in C. jejuni ) binds carnosine, albeit weakly, and this may be a mechanism for transport in C. jejuni [ 86 ]. The uptake of dipeptides in C. jejuni...”
- Campylobacter jejuni 11168H Exposed to Penicillin Forms Persister Cells and Cells With Altered Redox Protein Activity
Morcrette, Frontiers in cellular and infection microbiology 2020 - “...Lipoprotein thiredoxin 3.1258 Cj1601 hisA 1-(5-phosphoribosyl)-5 0.1415 Cj0268c Transmembrane protein 3.1233 Cj0440c Transcriptional regulator 0.1449 Cj0734c hisJ Histidine-binding protein 3.0803 Cj0234c frr Ribosome recycling factor 0.1472 Cj0090 Lipoprotein 3.0552 Cj1516 Oxidoreductase 0.158 Cj0853c hemL Glutamate-1-semialdehyde aminotransferase 2.8635 Cj0014c Integral membrane protein 0.159 The proteome of these...”
- Proteomics of Campylobacter jejuni Growth in Deoxycholate Reveals Cj0025c as a Cystine Transport Protein Required for Wild-type Human Infection Phenotypes
Man, Molecular & cellular proteomics : MCP 2020 - “...dipeptides ( 76 , 77 ). Other potential Cys transporters including Peb1A (Cj0921c) and CjaC (Cj0734c) have also been reported to not transport Cys or Cys-Cys. Our data correlate with these observations because we saw no change in abundance of CjaA, CjaC or Cj0469 in DOC...”
- Selective biochemical labeling of Campylobacter jejuni cell-surface glycoconjugates
Whitworth, Glycobiology 2015 - “...name Molecular weight (kDa) Identified peptides Known glycoprotein Glycan Cj0734c hisJ 29 6 Yes (Scott et al. 2011) N-Glycan Cj0983 jlpA 42 2 Yes (Scott et al....”
- Defining the metabolic requirements for the growth and colonization capacity of Campylobacter jejuni
Hofreuter, Frontiers in cellular and infection microbiology 2014 - “...not be solely involved in the uptake of cysteine (Vorwerk et al., 2014 ). CjaC (Cj0734c) is a N-glycosylated 28 kDa protein with unknown substrate specificity that is anchored in the cytoplasmic membrane of C. jejuni and shows best homologies to various periplasmic binding proteins of...”
- Modification of the Campylobacter jejuni N-linked glycan by EptC protein-mediated addition of phosphoethanolamine
Scott, The Journal of biological chemistry 2012 - “...the site of glycan attachment) from HisJ (CjaC or Cj0734c; MASCOT score 20), which was also observed in the C. jejuni JHH1 dataset, and a novel glycopeptide...”
- “...pEtN-modified N-linked glycan attached to antigenic protein HisJ (Cj0734c). A, shown is peptide fragmentation (lowercase y and b) by HCD MS/MS supporting the...”
- Simultaneous glycan-peptide characterization using hydrophilic interaction chromatography and parallel fragmentation by CID, higher energy collisional dissociation, and electron transfer dissociation MS applied to the N-linked glycoproteome of Campylobacter jejuni
Scott, Molecular & cellular proteomics : MCP 2011 - “...Cj1053c Cj1055c Cj1126c Cj1345c hisJ Gene name Cj0734c CJ no. Capsule polysaccharide export system periplasmic protein KpsD Putative integral membrane protein...”
- Key role of Mfd in the development of fluoroquinolone resistance in Campylobacter jejuni
Han, PLoS pathogens 2008 - “...0.076653 1.80 NT Cj0537 oorb , OORB subunit of 2-oxoglutarate:acceptor oxidoreductase 0.0024 0.076881 1.67 2.23 Cj0734c hisJ, histidine-binding protein precursor 0.0404 0.214389 1.59 NT Cj0764c speA , biosynthetic arginine decarboxylase 0.0116 0.129371 1.97 1.96 Cj0767c kdtB, 3-deoxy-D-manno-octulosonic-acid transferase 0.0370 0.207688 1.58 NT Cj1264c hydD , putative...”
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Q98FA8 Amino acid ABC transporter, periplasmic amino acid-binding protein from Mesorhizobium japonicum (strain LMG 29417 / CECT 9101 / MAFF 303099)
30% identity, 92% coverage
- Cyclic Isothiocyanate Goitrin Impairs Lotus japonicus Nodulation, Affects the Proteomes of Nodules and Free Mesorhizobium loti, and Induces the Formation of Caffeic Acid Derivatives in Bacterial Cultures
Jeong, Plants (Basel, Switzerland) 2024 - “...F1, 18 identified ABC transporter proteins were down regulated. Most affected proteins were Q98FL9, Q98BA6, Q98FA8, Q98MD4. Seven of these proteins act in amino acid transport, ten in sugar transport. Two transporters/transporter binding proteins were not changed in abundance, one is responsible for thiamine/iron transport, the...”
RHE_CH04006 probable amino acid ABC transporter, substrate-binding protein from Rhizobium etli CFN 42
31% identity, 93% coverage
- Impact of c-di-GMP on the Extracellular Proteome of Rhizobium etli
Lorite, Biology 2022 - “...most of which appear as RA in the LR101 supernatants. For instance, the solute-binding protein RHE_CH04006 was identified in four spots, three of which were RA (e108, e110, eD252) and another one IA in the LR101 culture supernatants (eD110; Table S1 ). The finding of one...”
- “...AfuA1, AfuA3, HmuT, OccT, ModA, PotF, MexE1, ZnuA, RHE_CH00971, RHE_PC00008, RHE_PC00118, RHE_PC00160, RHE_CH02418, RHE_PF00186, RHE_CH01465, RHE_CH04006, RHE_PF00410, RHE_CH02293, RHE_CH03027, RHE_CH03963, RHE_CH03445, RHE_PB00126, RHE_CH00175, RHE_PF00269, RHE_CH02683, RHE_CH02890, RHE_PE00259, RHE_PF00068, RHE_CH00492, RHE_CH01210, RHE_CH02898, RHE_PF00091, RHE_PB00025, RHE_PF00321, RHE_PB00139, RHE_PF00395, RHE_CH00485, RHE_PC00167, RHE_CH03866, RHE_CH02084 Bold letters indicate proteins reported as...”
LI0754 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain from Lawsonia intracellularis PHE/MN1-00
31% identity, 85% coverage
CS401_RS03075 basic amino acid ABC transporter substrate-binding protein from Fusobacterium vincentii
31% identity, 96% coverage
TcyJ / b1920 cystine ABC transporter periplasmic binding protein (EC 7.4.2.12) from Escherichia coli K-12 substr. MG1655 (see 12 papers)
tcyJ / P0AEM9 cystine ABC transporter periplasmic binding protein (EC 7.4.2.12) from Escherichia coli (strain K12) (see 13 papers)
TCYJ_ECOLI / P0AEM9 L-cystine-binding protein TcyJ; CBP; Protein FliY; Sulfate starvation-induced protein 7; SSI7 from Escherichia coli (strain K12) (see 6 papers)
TC 3.A.1.3.10 / P0AEM9 Cystine-binding periplasmic protein FLIY aka CysX aka B1920, component of Cystine/cysteine/diaminopimelate transporter, CysXYZ; these proteins are also designated FliY/YecS/YecC from Escherichia coli (see 7 papers)
NP_416430 cystine ABC transporter periplasmic binding protein from Escherichia coli str. K-12 substr. MG1655
P0AEN0 L-cystine-binding protein TcyJ from Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)
b1920 cystine transporter subunit from Escherichia coli str. K-12 substr. MG1655
28% identity, 94% coverage
- function: Part of the ABC transporter complex TcyJLN involved in L- cystine import (PubMed:20351115, PubMed:25139244, PubMed:25837721, PubMed:26350134). This high affinity cystine transporter is involved in resistance to oxidative stress by forming a L-cysteine/L-cystine shuttle system with the EamA transporter, which exports L-cysteine as reducing equivalents to the periplasm to prevent the cells from oxidative stress. Exported L-cysteine can reduce the periplasmic hydrogen peroxide to water, and then generated L-cystine is imported back into the cytoplasm via the TcyJLN complex (PubMed:20351115, PubMed:25837721). Functions at low cystine concentrations (PubMed:26350134). The system can also transport L-cysteine, diaminopimelic acid (DAP), djenkolate, lanthionine, D-cystine, homocystine, and it mediates accumulation of the toxic compounds L- selenaproline (SCA) and L-selenocystine (SeCys) (PubMed:25139244, PubMed:26350134). Binds cystine and DAP (PubMed:4564569, PubMed:8450713).
subunit: The complex is composed of two ATP-binding proteins (TcyN), two transmembrane proteins (TcyL) and a solute-binding protein (TcyJ).
disruption phenotype: Disruption of the gene significantly impairs intracellular uptake of L-cystine (PubMed:20351115, PubMed:25837721). Mutants show a higher sensitivity to H(2)O(2) than wild-type cells (PubMed:20351115). The tcyJ-tcyP double mutant is unable to import cystine and is completely resistant to both L-selenaproline and L- selenocystine (PubMed:25139244, PubMed:26350134). The double disruption of eamA and tcyJ increases cellular levels of lipid peroxides (PubMed:25837721). - substrates: Cystine, DAP
tcdb comment: Note, another transporter is designated CysZ in E. coli (TC# 2.A.121.1.1). CysXYZ also transports the toxic amino acid analogues, L-selenaproline (SCA; L-selenazolidine-4-carboxylic acid) and L-selenocystine (SeCys) (Deutch et al. 2014). FliY binds L-cystine, L-cysteine, and D-cysteine with micromolar affinities, but binding of the L- and D-enantiomers induced different conformational changes in FliY, where the L- enantiomer/SBP complex interacted more efficiently with the YecSC transporter. YecSC has low basal ATPase activity that is moderately stimulated by apo-FliY, more strongly by D-cysteine-bound FliY, and maximally by L-cysteine- or L-cystine-bound FliY (Sabrialabe et al. 2020) - Substrate recognition and ATPase activity of the E. coli cysteine/cystine ABC transporter YecSC-FliY
Sabrialabed, The Journal of biological chemistry 2020 - “...strains and plasmids The genes for yecC (ACC P37774), yecS (ACC P0AFT2), and fliY (ACC P0AEM9) were PCR-amplified from the E. coli K-12 derivative strain BW25113. All restriction sites for subcloning were inserted at this stage. fliY was inserted into the NdeI/XhoI sites of a pET21b...”
- “...( 81 ) to search for homologs of the E. coli cysteine-binding protein (FliY, SWISSPROT P0AEM9). A search against Uniclust30 ( 82 ) yielded 250 homologs, which we aligned using MAFFT ( 83 ). Using the 2.26 resolution crystal structure of NGO2014, the cysteine binding protein...”
- A comparison of asparaginase activity in generic formulations of E.coli derived L- asparaginase: In-vitro study and retrospective analysis of asparaginase monitoring in pediatric patients with leukemia
Sankaran, British journal of clinical pharmacology 2020 (secret) - Escherichia coli flagellar genes as target sites for integration and expression of genetic circuits.
Juhas, PloS one 2014 - GeneRIF: analysis of integration and expression at four candidate loci, fliD, fliS, fliT, and fliY, of the E. coli flagellar region 3a
- Amino acid composition and N-terminal sequence of purified cystine binding protein of Escherichia coli.
Butler, Life sciences 1993 (PubMed)- GeneRIF: N-terminus verified by Edman degradation on mature peptide
- Impact of chlorhexidine digluconate and temperature on curli production in Escherichia coli-consequence on its adhesion ability
Coquet, AIMS microbiology 2017 - “...several bacteriophages P02943 OM 47 6 428 3.45 Cystine-binding periplasmic protein (fliY) Transport of cyst(e)ine P0AEN0 P 83 6 493 2.84 1.98 Outer-membrane lipoprotein carrier protein (lolA) Transport of proteins P61316 OM 50 4 253 2.79 Arginine-binding periplasmic protein 1 (artI) Transport of arginine P30859 P...”
- Tracing the phylogenetic history of the Crl regulon through the Bacteria and Archaea genomes
Santos-Zavaleta, BMC genomics 2019 - “...talA- tktB CreB(+) + GEA, IMP [ 11 ] carbohydrate metabolic process, pentose-phosphate shunt tar b1920 tar- tap-cheRBYZ Fnr(+) IMP [ 13 ] chemotaxis, signal transduction tcyJ (fliY) b3116 tcyJ fliA Z -tcyJ H-NS(+), MatA(), SutR(), NsrR(), CsgD(), FlhDC(+) IMP [ 13 ] L-cystine transport tdcC...”
- Evolutionary dynamics of small RNAs in 27 Escherichia coli and Shigella genomes
Skippington, Genome biology and evolution 2012 - “...btuB b3966 omrA 25 Variable Incongruent No cirA b2155 omrA 21 Variable Incongruent No fliY b1920 omrA 10 Variable Incongruent No fepA b0584 omrA 26 Variable Incongruent No ompT b0565 omrA 3 Variable N < 4 N < 4 folP b3177 omrA 27 Core Incongruent No...”
- The HU regulon is composed of genes responding to anaerobiosis, acid stress, high osmolarity and SOS induction
Oberto, PloS one 2009 - “...0.23 1.13 1 0.49 0.47 1.55 FRec fumarase A=fumarate hydratase Class I aerobic isozyme fliY b1920 fliAZY 1 1.85 0.69 1.85 1 1.11 0.91 3.26 1 1.42 1.01 0.73 FA putative periplasmic binding transport protein ndk b2518 ndk 1 16.55 0.94 12.98 1 0.67 0.3 8.27...”
- Sulfur and nitrogen limitation in Escherichia coli K-12: specific homeostatic responses
Gyaneshwar, Journal of bacteriology 2005 - “...a gene encoding a periplasmic cystine binding protein (b1920; misnamed fliY and known to be sulfate starvation induced [18, 37]), the cysteine biosynthetic gene...”
- “...numerically were b0198 and b0199 (metIN), b1919 and b1920 (dcyD-fliY), b2012 and b2013 (yeeDE), b2423 (cysW), b2530 (iscS), and b3207 (yrbL). The genes that...”
- Genome image programs: visualization and interpretation of Escherichia coli microarray experiments
Zimmer, Genetics 2004 - “...of the flagellar and chemotaxis regulon (b1070-1083, b1881-1892, b1920- 1926) and to operons encoding the F1F0 ATPase (b3731- 3739) and the tricarboxylic acid...”
- Complete genome sequence and comparative genomics of Shigella flexneri serotype 2a strain 2457T
Wei, Infection and immunity 2003 - “...b0808 b0899 b0934 b1053 b1169 b1170 b1336 b1483 b1543 b1920 b2681 b3514 b3877 b4231 b2117 b1020 b2479 b2090 b3763 b1384 b1892 b1074 b1942 b2365 b1899 b3907...”
- DNA microarray analyses of the long-term adaptive response of Escherichia coli to acetate and propionate
Polen, Applied and environmental microbiology 2003 - “...Function Name Acetate Propionate NaCl b1918 b1919 b1920 yecC b1919 fliY 1 1 1 Putative transport system permease protein Putative...”
- Physiological studies of Escherichia coli strain MG1655: growth defects and apparent cross-regulation of gene expression
Soupene, Journal of bacteriology 2003 - “...4TMTMTMTMTMTMTMTMTMTMTM 4TM 4TMTM cheZYBR-tap-tar/cheWA-motBA/flhCD], b1920 to b1926 [fliYZA/ 4TMTM TMTM3 4TMTM TMTMTMTMTMTM3 TMTMTMTMTMTMTMTMTM...”
c2335 Cystine-binding periplasmic protein precursor from Escherichia coli CFT073
28% identity, 88% coverage
Z3010 putative periplasmic binding transport protein from Escherichia coli O157:H7 EDL933
28% identity, 94% coverage
NT01EI_1697 hypothetical protein from Edwardsiella ictaluri 93-146
27% identity, 87% coverage
LSEI_0601 ABC-type amino acid transport/signal transduction system, periplasmic component/domain from Lactobacillus casei ATCC 334
LSEI_0601 transporter substrate-binding domain-containing protein from Lacticaseibacillus paracasei ATCC 334
31% identity, 84% coverage
- Regulatory Mechanisms of L-Lactic Acid and Taste Substances in Chinese Acid Rice Soup (Rice-Acid) Fermented With a Lacticaseibacillus paracasei and Kluyveromyces marxianus
Liu, Frontiers in microbiology 2021 - “...indicated that ABC transporter transcription levels of the gene encoding L-cystine transport system substrate-binding protein (LSEI_0601) and the gene encoding D-methionine transport system substrate-binding protein (LSEI_1177) were up-regulated, whereas ABC transporter transcription levels of some genes encoding oligopeptide transport system substrate-binding protein (LSEI_0175), ATP-binding cassette, subfamily...”
- “...first pairwise comparison (L3 vs L1 days). The genes encoding L-cystine transport system substrate-binding protein (LSEI_0601) and D-methionine transport system substrate-binding protein (LSEI_1177) were up-regulated in the first and third pairwise comparisons. The comparison results of different fermentation time ( Supplementary Table 3 ) indicated that...”
PA14_36200 putative binding protein component of ABC transporter from Pseudomonas aeruginosa UCBPP-PA14
28% identity, 93% coverage
SAK_RS07535 ABC transporter substrate-binding protein/permease from Streptococcus agalactiae A909
30% identity, 30% coverage
- Nitric Oxide Production and Effects in Group B Streptococcus Chorioamnionitis
Keith, Pathogens (Basel, Switzerland) 2022 - “...protein YBBM-related iron transporter (fetB) 3.19 4.23 3.71 SAK_RS04085 W903_RS03765 hypothetical protein 3.02 4.18 3.60 SAK_RS07535 W903_RS07235 membrane component of amino acid ABC transporter 3.22 3.47 3.34 SAK_RS07540 W903_RS07240 hypothetical protein 3.22 3.30 3.26 SAK_RS06865 W903_RS06570 5-nucleotidase-related 3.16 3.34 3.25 SAK_RS04495 W903_RS04200 hypothetical protein 2.87 2.25...”
W903_RS07235 ABC transporter substrate-binding protein/permease from Streptococcus agalactiae CNCTC 10/84
SAG1466 glutamine ABC transporter, glutamine-binding protein/permease protein from Streptococcus agalactiae 2603V/R
30% identity, 30% coverage
- Nitric Oxide Production and Effects in Group B Streptococcus Chorioamnionitis
Keith, Pathogens (Basel, Switzerland) 2022 - “...YBBM-related iron transporter (fetB) 3.19 4.23 3.71 SAK_RS04085 W903_RS03765 hypothetical protein 3.02 4.18 3.60 SAK_RS07535 W903_RS07235 membrane component of amino acid ABC transporter 3.22 3.47 3.34 SAK_RS07540 W903_RS07240 hypothetical protein 3.22 3.30 3.26 SAK_RS06865 W903_RS06570 5-nucleotidase-related 3.16 3.34 3.25 SAK_RS04495 W903_RS04200 hypothetical protein 2.87 2.25 2.56...”
- Protectome analysis: a new selective bioinformatics tool for bacterial vaccine candidate discovery
Altindis, Molecular & cellular proteomics : MCP 2015 - “...SAG0290, SAG0717, SAG0949, SAG1431, SAG1610, SAG1642, SAG1466 S. aureus: SAOUHSC_00634*, SAOUHSC_02690 GBS: SAG1533, SAG0535, SAG1234, SAG1938 S. aureus:...”
- CsrRS and environmental pH regulate group B streptococcus adherence to human epithelial cells and extracellular matrix
Park, Infection and immunity 2012 - “...Regulatory function Transport and binding proteins Other adhesins sag1007 sag1466 GlnP sag1467 GlnQ sag0765 sag1331 sag1350 sag0971 Sar5 25 4 36 34 8, 28 1, 42...”
- “...1312 1311 F R AAAGGAGTTGCTGAGCGTGT ACCAAAACGACCAGAAGGTG sag1007 sag1466 GlnP 1353 1354 F R TTGCTGCTACTATCGCTCTTTC CTACGACTTGCTTCCATTTGAC sag1467 GlnQ 1389 1390...”
- Transcriptional and proteomic profiles of group B Streptococcus type V reveal potential adherence proteins associated with high-level invasion
Johri, Infection and immunity 2007 - “...SAG1257 SAG1262 SAG1337 SAG1359 SAG1732 SAG1007 SAG1393 SAG1466 SAG1796 Unknown function SAG0019 SAG0306 SAG1186 SAG1381 SAG1628 a Cation-transporting ATPase,...”
- “...SAG1108 SAG1257 SAG1262 SAG1359 SAG0514 SAG1007 SAG1441 SAG1466 SAG1610 SAG1796 Unknown function SAG0019 SAG0306 SAG0886 SAG1186 SAG1350 SAG1126 SAG1381 a...”
6svfA / Q9WZ62 Crystal structure of the p235gk mutant of argbp from t. Maritima (see paper)
30% identity, 87% coverage
DR_2154 amino acid ABC transporter, periplasmic amino acid-binding protein from Deinococcus radiodurans R1
30% identity, 76% coverage
SAN_1568 amino acid ABC transporter, amino acid-binding/permease protein from Streptococcus agalactiae COH1
30% identity, 41% coverage
PFLU_0246 cystine ABC transporter substrate-binding protein from Pseudomonas [fluorescens] SBW25
31% identity, 86% coverage
A9497_03360, T303_08290 ABC transporter substrate-binding protein from Streptococcus thermophilus ASCC 1275
34% identity, 84% coverage
- Functional Genomic Analyses of Exopolysaccharide-Producing Streptococcus thermophilus ASCC 1275 in Response to Milk Fermentation Conditions
Wu, Frontiers in microbiology 2019 - “...biosynthesis T303_03435 2.42 Acetylglutamate kinase Arginine biosynthesis T303_09105 4.34 Amino acid ABC transporter substrate-binding protein T303_08290 2.47 Amino acid ABC transporter substrate-binding protein T303_08720 1.81 Amino acid ABC transporter substrate-binding protein T303_04105 1.79 Branched-chain amino acid aminotransferase Carbohydrate transport and metabolism T303_04850 0.62 Glucokinase T303_02705 0.53...”
- Technological and Genomic Analysis of Roles of the Cell-Envelope Protease PrtS in Yoghurt Starter Development
Tian, International journal of molecular sciences 2018 - “...transporter ATP-binding protein A9497_00720 A9497_04150 A9497_03405 A9497_03795 AKL23_RS04215 AKL23_RS07760 AKL23_RS07020 AKL23_RS07405 ABC transporter permease A9497_04155 A9497_03360 A9497_03370 A9497_07620 AKL23_RS07765 AKL23_RS06975 AKL23_RS06985 AKL23_RS06990 ABC transporter substrate-binding protein A9497_03375 A9497_03785 A9497_07595 AKL23_RS07395 AKL23_RS01465 AKL23_RS01490 Amino acid A9497_08630 AKL23_RS02545 Transporter A9497_02760 A9497_03620 A9497_09055 AKL23_RS02000 AKL23_RS02915 AKL23_06320 Permease Branched-chain amino...”
AAC45332.1 high affinity cystine binding protein from Lactobacillus reuteri (see 4 papers)
29% identity, 95% coverage
CMM_2628 putative polar amino acid ABC transporter,substrate-binding protein from Clavibacter michiganensis subsp. michiganensis NCPPB 382
30% identity, 84% coverage
Q8PVM4 Glutamine-binding protein from Methanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88)
MM1939 Glutamine-binding protein from Methanosarcina mazei Goe1
29% identity, 80% coverage
HISJ_CAMJE / Q46125 Probable histidine-binding protein; HBP; p29 from Campylobacter jejuni subsp. jejuni serotype O:2 (strain ATCC 700819 / NCTC 11168) (see paper)
29% identity, 86% coverage
MCP_2742 putative amino acid ABC transporter amino acid binding protein from Methanocella paludicola SANAE
27% identity, 80% coverage
BPSL2615 ABC transporter, substrate binding component from Burkholderia pseudomallei K96243
28% identity, 87% coverage
GBAA4376 amino acid ABC transporter, amino acid-binding protein from Bacillus anthracis str. 'Ames Ancestor'
30% identity, 95% coverage
DR_2278 amino acid ABC transporter, periplasmic amino acid-binding protein from Deinococcus radiodurans R1
33% identity, 62% coverage
RHE_RS24420 transporter substrate-binding domain-containing protein from Rhizobium etli CFN 42
28% identity, 82% coverage
- Rhizobium etli CFN42 proteomes showed isoenzymes in free-living and symbiosis with a different transcriptional regulation inferred from a transcriptional regulatory network
Taboada-Castro, Frontiers in microbiology 2022 - “...system ATP-binding protein K23537 Bacteroid RHE_RS00955 nupA; general nucleoside transport system ATP-binding protein K10018 MM RHE_RS24420 occT, nocT; octopine/nopaline transport system substrate-binding protein K10018 Bacteroid RHE_RS30295 occT, nocT; octopine/nopaline transport system substrate-binding protein K00033 MM RHE_RS12615 PGD, gnd, gntZ; 6-phosphogluconate dehydrogenase [EC:1.1.1.44 1.1.1.343] K00033 Bacteroid RHE_RS17825...”
- “...Table 1 ). For occT , nocT , octopine/nopaline transport system substrate-binding protein; in MM, RHE_RS24420 was identified and RHE_RS30295 was expressed in bacteroid ( Table 1 ). The malK , mtlK , thuK ; multiple sugar transport system ATP-binding protein [EC:3.6.3.-]; in MM, the proteins...”
PFLU0376 putative ABC transport system, exported protein from Pseudomonas fluorescens SBW25
29% identity, 84% coverage
PFLU_0376 transporter substrate-binding domain-containing protein from Pseudomonas [fluorescens] SBW25
29% identity, 85% coverage
C6AZZ6 Extracellular solute-binding protein family 3 from Rhizobium leguminosarum bv. trifolii (strain WSM1325)
30% identity, 93% coverage
pRL110211 putative substrate-binding component of ABC transporter from Rhizobium leguminosarum bv. viciae 3841
28% identity, 88% coverage
AKL23_RS06975 transporter substrate-binding domain-containing protein from Streptococcus thermophilus
33% identity, 84% coverage
- Technological and Genomic Analysis of Roles of the Cell-Envelope Protease PrtS in Yoghurt Starter Development
Tian, International journal of molecular sciences 2018 - “...A9497_04150 A9497_03405 A9497_03795 AKL23_RS04215 AKL23_RS07760 AKL23_RS07020 AKL23_RS07405 ABC transporter permease A9497_04155 A9497_03360 A9497_03370 A9497_07620 AKL23_RS07765 AKL23_RS06975 AKL23_RS06985 AKL23_RS06990 ABC transporter substrate-binding protein A9497_03375 A9497_03785 A9497_07595 AKL23_RS07395 AKL23_RS01465 AKL23_RS01490 Amino acid A9497_08630 AKL23_RS02545 Transporter A9497_02760 A9497_03620 A9497_09055 AKL23_RS02000 AKL23_RS02915 AKL23_06320 Permease Branched-chain amino acid A9497_00490 A9497_01930 A9497_07910...”
SPD_0109 amino acid ABC transporter, periplasmic amino acid-binding protein, putative from Streptococcus pneumoniae D39
29% identity, 94% coverage
spr0101 ABC transporter solute-binding protein - amino acid transport from Streptococcus pneumoniae R6
29% identity, 95% coverage
- A Pneumococcal Protein Array as a Platform to Discover Serodiagnostic Antigens Against Infection
Olaya-Abril, Molecular & cellular proteomics : MCP 2015 - “...spr1494 (6), spr1975 (23) spr0679 (17), spr0884 (16) spr0101 (30), spr0146 (29), spr0327 (10), spr1251 (28), spr1257 (80), spr1382 (1), spr1707 (3), spr1712...”
AKL23_RS04225 amino acid ABC transporter substrate-binding protein from Streptococcus thermophilus
29% identity, 88% coverage
- Technological and Genomic Analysis of Roles of the Cell-Envelope Protease PrtS in Yoghurt Starter Development
Tian, International journal of molecular sciences 2018 - “...A9497_04685 A9497_04690 AKL23_RS08280 AKL23_RS08285 Permease A9497_07905 AKL23_RS01770 ABC transporter substrate-binding protein Glutamine A9497_01790 A9497_06995 A9497_00730 AKL23_RS04225 AKL23_RS00860 AKL23_RS05335 ABC transporter substrate-binding protein A9497_01795 A9497_01800 A9497_09175 AKL23_RS05340 AKL23_RS05345 AKL23_RS03035 ABC transporter permease A9497_03790 A9497_09180 AKL23_RS03040 AKL23_RS07400 ABC transporter ATP-binding protein Methionine A9497_07635 AKL23_RS01505 ABC transporter ATP-binding protein...”
A9497_00730 amino acid ABC transporter substrate-binding protein from Streptococcus thermophilus
29% identity, 88% coverage
- Technological and Genomic Analysis of Roles of the Cell-Envelope Protease PrtS in Yoghurt Starter Development
Tian, International journal of molecular sciences 2018 - “...permease A9497_04685 A9497_04690 AKL23_RS08280 AKL23_RS08285 Permease A9497_07905 AKL23_RS01770 ABC transporter substrate-binding protein Glutamine A9497_01790 A9497_06995 A9497_00730 AKL23_RS04225 AKL23_RS00860 AKL23_RS05335 ABC transporter substrate-binding protein A9497_01795 A9497_01800 A9497_09175 AKL23_RS05340 AKL23_RS05345 AKL23_RS03035 ABC transporter permease A9497_03790 A9497_09180 AKL23_RS03040 AKL23_RS07400 ABC transporter ATP-binding protein Methionine A9497_07635 AKL23_RS01505 ABC transporter ATP-binding...”
OA04_02820 amino acid ABC transporter substrate-binding protein from Pectobacterium versatile
30% identity, 97% coverage
SPy1315, SPy_1315 hypothetical protein from Streptococcus pyogenes M1 GAS
29% identity, 30% coverage
- A genome-scale metabolic model of a globally disseminated hyperinvasive M1 strain of Streptococcus pyogenes
Hirose, mSystems 2024 - “...be essential in living bacterial cells cultured in the THY medium. One such FP is SPy_1315 (ABC transporter permease subunit, glnP ), which serves as a GPR for L-glutamine transport via the ABC system (GLNabc) reaction in iYH543. Since L-glutamine can be produced from other components...”
- “...considered non-essential in iYH543. However, a DELTA-BLAST search reveals that S. pyogenes GlnP (encoded by SPy_1315) shares high similarity with a part of an ABC transporter involved in lysine, arginine, and ornithine transport in Streptococcus infantarius subsp. (accession: EDT46715.1 ) (query cover 100%, E -value 1.00...”
- Novel conserved group A streptococcal proteins identified by the antigenome technology as vaccine candidates for a non-M protein-based vaccine
Fritzer, Infection and immunity 2010 - “...Spy0416 Spy0488 Spy0720 Spy0872 Spy0895 Spy1063 Spy1245 Spy1315 Spy1357 Spy1361 Spy1390 Spy1494 Spy1536 Spy1607 Spy1666 Spy1727 Spy1798 Hypothetical protein...”
- “...E:3, M:5 A:3 Common name Spy1206 Spy1228 Spy1245 Spy1315 Spy1357 Spy1361 Spy1371 Spy1375 Spy1389 Spy1390 Spy1422 Spy1436 Spy1494 Spy1523 Spy1536 Spy1564 Spy1604...”
- Proteomic analysis and identification of Streptococcus pyogenes surface-associated proteins
Severin, Journal of bacteriology 2007 - “...SPy0097 SPy0127 SPy0613 SPy0818 SPy0836 SPy1154 SPy1315 SPy1370 SPy1544 SPy1649 SPy1686 SPy1697 SPy1798 SPy1892 Early-exponential phase Late-exponential phase...”
SPD_1098 amino acid ABC transporter, amino acid-binding protein/permease protein from Streptococcus pneumoniae D39
SP_1241 amino acid ABC transporter, amino acid-binding protein/permease protein from Streptococcus pneumoniae TIGR4
29% identity, 30% coverage
- A Tn-seq Screen of Streptococcus pneumoniae Uncovers DNA Repair as the Major Pathway for Desiccation Tolerance and Transmission
Matthews, Infection and immunity 2021 (secret) - Glutamate Dehydrogenase (GdhA) of Streptococcus pneumoniae Is Required for High Temperature Adaptation
Gazioglu, Infection and immunity 2021 (secret) - Dynamic Pneumococcal Genetic Adaptations Support Bacterial Growth and Inflammation during Coinfection with Influenza
Smith, Infection and immunity 2021 - “...protein SPD_0994 ribF Riboflavin biosynthesis protein RibF SPD_1087 fhs Formate-tetrahydrofolate ligase SPD_1090 Membrane protein, putative SPD_1098 Amino acid ABC transporter, amino acid-binding protein/permease protein SPD_1099 Amino acid ABC transporter, ATP-binding protein SPD_1130 licD2 Phosphotransferase LicD2 SPD_1293 Acetyltransferase, GNAT family protein SPD_1309 pgdA Peptidoglycan GlcNAc deacetylase SPD_1333...”
- Panproteome-wide analysis of antibody responses to whole cell pneumococcal vaccination
Campo, eLife 2018 - “...(0.0460.169) 0.178 (0.1330.387) 0.278 (0.1050.447) 0.495 (0.2580.576) Both GlnPH4 Amino acid ABC transporter permease GlnPH4 SPD_1098 4.006 (3.3444.515) 0.083 (0.0160.317) 0.089 (0.0190.155) 0.154 (0.0060.296) 0.269 (0.1730.367) Linear mixed effects GroEL Chaperonin GroEL SPD_1709 2.252 (1.1293.083) 0.057 (0.1010.010) 0.396 (0.1940.571) 0.068 (0.0330.856) 0.426 (0.1070.963) Both HtrA Surface-associated...”
- Cysteine-Mediated Gene Expression and Characterization of the CmbR Regulon in Streptococcus pneumoniae
Afzal, Frontiers in microbiology 2016 - “...Glutamine synthetase, GlnA -2.7 spd_0449 Hypothetical protein -1.5 spd_0558 Cell wall-associated serine protease, PrtA -4.4 spd_1098 Amino acid ABC transporter, GlnP -1.9 spd_1099 Amino acid ABC transporter, GlnQ -2.0 spd_1402 Non-heme iron-containing ferritin -2.6 spd_1461 Manganese ABC transporter, ATP-binding protein, PsaB -4.0 spd_1462 Manganese ABC transporter,...”
- N-acetylglucosamine-Mediated Expression of nagA and nagB in Streptococcus pneumoniae
Afzal, Frontiers in cellular and infection microbiology 2016 - “...GlnA 3.3 spd_1099 Amino acid ABC transporter, ATP-binding protein 3.3 spd_0447 Transcriptional regulator, GlnR 3.7 spd_1098 Amino acid ABC transporter, amino acid-binding protein 4.4 a Gene numbers refer to D39 locus tags. b D39 annotation (Lanie et al., 2007 ). c Ratio represents the fold increase/decrease...”
- Sialic acid-mediated gene expression in Streptococcus pneumoniae and role of NanR as a transcriptional activator of the nan gene cluster
Afzal, Applied and environmental microbiology 2015 - “...Downregulated genes spd_0334 spd_0447 spd_0448 spd_0901 spd_1098 spd_1099 spd_1158 spd_1514 spd_1515 spd_1516 spd_1956 Ratiob Hypothetical protein Hypothetical...”
- Site-specific contributions of glutamine-dependent regulator GlnR and GlnR-regulated genes to virulence of Streptococcus pneumoniae
Hendriksen, Infection and immunity 2008 - “...SPD_1988 SPD_1994 SPD_0096 SPD_0381 SPD_0448 SPD_0803 SPD_1098 SPD_1099 SPD_1402 SPD_1524 SPD_1526 SPD_1526 SPD_1607 SPD_2068 SP_1986 SP_2031 SP_2036 SP_2125...”
- Lactococcus lactis, an Attractive Cell Factory for the Expression of Functional Membrane Proteins
Frelet-Barrand, Biomolecules 2022 - “...55.5 6 23% [ 60 ] SP_0453 ABC transporter, AA-binding protein/permease protein 57.4 6 <1% SP_1241 ABC transporter, AA-binding protein/permease protein 78.4 3 <1% LacS MFS transporter 56.6 12 S. thermophilus 12% [ 11 ] SfbA/FbaA streptococcal fibronectin-binding protein A 37.8 1 Streptococcus - [ 90...”
- The Effect of Impaired Polyamine Transport on Pneumococcal Transcriptome
Nakamya, Pathogens (Basel, Switzerland) 2021 - “...SP_1870 2.7 <0.0001 Iron-compound ABC transporter SP_1871 SP_1871 2.9 <0.0001 Iron ABC transporter ATP-binding protein SP_1241 SP_1241 3.1 <0.0001 Glutamine transport system substrate-binding SP_1242 SP_1242 3.2 <0.0001 Glutamine transport system ATP-binding protein SP_2087 pstB 41.8 <0.0001 Phosphate ABC transporter ATP-binding protein SP_2085 pstC 37.2 <0.0001 Phosphate...”
- Prediction and Validation of Immunogenic Domains of Pneumococcal Proteins Recognized by Human CD4+ T Cells
van, Infection and immunity 2019 - “...456 94.88 1.51 44 SP_0008 TIGR4 122 Uncharacterized protein Cell membrane 89 89.29 1.25 36 SP_1241 TIGR4 721 Amino acid ABC transporter, amino acid-binding protein Cell membrane 466 53.86 1.33 35 , 36 SP_0468 TIGR4 283 Putative sortase Cell membrane 165 43.68 2.45 36 SP_2204 TIGR4...”
- “...5168 0.73 17 32.05 1.28 96116 AAK YTRAKYYYSKSREKV YTI 97114 1.12 11 15.5 0.45 7 SP_1241 Amino acid ABC transporter, amino acid-binding protein 694720 MYA ILAIFYLVIITLLTRLAKRLE KRI 694711, 703720 1.14 36 66.02 3.45 508531 QNN YKQLLSGLGITLALALIS FAI 508525, 514531 0.93 23 47.43 3.12 123 MKKKFLAFLLILFPIFSLGI AKA...”
- Site-specific contributions of glutamine-dependent regulator GlnR and GlnR-regulated genes to virulence of Streptococcus pneumoniae
Hendriksen, Infection and immunity 2008 - “...spr1961 SP_2157 SP_2160 SP_2166 SP_0100 SP_0418 SP_0502 SP_0910 SP_1241 SP_1242 SP_1572 SP_1714 spr1560 SP_1715 SP_1824 SP_2239 adh2 fucA acp glnA glnP glnQ dpr...”
YP_139361 polar amino acid ABC uptake transporter substrate binding protein from Streptococcus thermophilus LMG 18311
29% identity, 88% coverage
TC 3.A.1.3.25 / Q9CES5 Glutamine ABC transporter permease and substrate binding protein protein, component of Glutamine transporter, GlnQP. Takes up glutamine, asparagine and glutamate which compete for each other for binding both substrate and the transmembrane protein constituent of the system (Fulyani et al. 2015). Tandem substrate binding domains (SBDs) differ in substrate specificity and affinity, allowing cells to efficiently accumulate different amino acids via a single ABC transporter. Analysis revealed the roles of individual residues in determining the substrate affinity from Lactococcus lactis subsp. lactis (strain IL1403)
L165 glutamine ABC transporter permease and substrate binding protein PROTEIN from Lactococcus lactis subsp. lactis Il1403
WP_003132767 amino acid ABC transporter substrate-binding protein/permease from Lactococcus lactis subsp. lactis
29% identity, 35% coverage
- substrates: Asparagine, Glutamine, glutamate
- The S-component fold: a link between bacterial transporters and receptors
Partipilo, Communications biology 2024 - “...RibU was used as a negative control, while that of GlnP 85 (UniProt accession number: Q9CES5) was used as a positive control. The inquiry on SignalP 5.0 accounted for the Gram-positive/negative origin of the organism harboring the receptors. The sequence logo of helix 0 (Fig. 4a...”
- “...identifiers (UniProt accession numbers: number E5QVT2, Q1G930, A2RI47, A2RMJ9, P94513, P54595, P0AA93, P0AD14, Q08430, Q2G061, Q9CES5, Q2JYM9, Q488U0, F5RD42, C6WYA8, Q64AC4, E8TNX1, A8TXH3, A0A4R3E8R1, A2SU24) and corresponding protein structures were obtained from online resources publicly available, and described in the main document and the supplementary information....”
- Dynamics of diversified A-to-I editing in Streptococcus pyogenes is governed by changes in mRNA stability
Wulff, Nucleic acids research 2024 - “...18.2 1022344 SPy_1239 pepN aminopeptidase N L179 21.3 19.9 27.8 1302726 SPy_1584 aroE shikimate dehydrogenase L165 22.9 14.0 29.9 Recoding / non-synonymous editing 365684 SPy_0442 glpT glycerol-3-phosphate permease T14A 3.6 2.2 1.8 375257 SPy_0458 ftsK DNA segregation ATPase K13E 30.4 25.8 27.0 390540 SPy_0477 putative Nudix...”
- Phosphoribosyl Diphosphate (PRPP): Biosynthesis, Enzymology, Utilization, and Metabolic Significance
Hove-Jensen, Microbiology and molecular biology reviews : MMBR 2017 - “...Q183 M199 V200 V201 V205 E207 Q105 T128 L129 S132 V144 L165 A173 H179 F180 F181 K185 N198 K107 E130 E131 Y134 K136 L169 E177 Y183 S184 Y185 E189 A202 R106 H128...”
- Antimicrobial activity of MDL 63,246, a new semisynthetic glycopeptide antibiotic
Goldstein, Antimicrobial agents and chemotherapy 1995 - “...4 mg of MDL 63,246 per ml against S. aureus L1524 and L165 (Fig. 2a and b), but it gave a somewhat lower level of killing at 48 h against L1658 (Fig. 2c),...”
- “...Bactericidal activity of MDL 63,246 against S. aureus L1524 (a), L165 (b), and L1658 (c). , untreated control; F, MDL 63,246 (2 and 4 mg/ml for L1524 and L1658;...”
- Structural characterization and modeling of the Borrelia burgdorferi hybrid histidine kinase Hk1 periplasmic sensor: A system for sensing small molecules associated with tick feeding
Bauer, Journal of structural biology 2015 - “...(GenBank accession KFX35677); GlnBP, GlnP Substrate Binding Domain 2 (sbd2) from Lactococcus lactis (GenBank accession WP_003132767); HisJ, ABC transporter substrate-binding protein HisJ from E. coli (GenBank accession AAA85769). Figure 2 Refined crystal structure of B. burgdorferi Hk1 sensor domain D1 A . Ribbon drawing of the...”
SM12261_RS05465 ABC transporter substrate-binding protein/permease from Streptococcus mitis NCTC 12261
29% identity, 30% coverage
TM0593 amino acid ABC transporter, periplasmic amino acid-binding protein from Thermotoga maritima MSB8
Q9WZ62 Amino acid ABC transporter, periplasmic amino acid-binding protein from Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)
32% identity, 74% coverage
- Periplasmic Binding Proteins in Thermophiles: Characterization and Potential Application of an Arginine-Binding Protein from Thermotoga maritima: A Brief Thermo-Story
Ausili, Life (Basel, Switzerland) 2013 - “...open reading frames (ORFs) annotated as putative periplasmic binding proteins [ 32 ], among which tm0593 encodes a protein with similar sequence to several polar amino acid-binding protein although from this homology it could not be possible to predict the specific cognate ligand for the protein....”
- “...acid arginine [ 37 ]. 2. TmArgBP Structure Having established that the protein encoded by tm0593 was a specific arginine-binding protein (TmArgBP) with known dissociation constant, its molecular organization, conformational dynamics and structural stability were studied by means of different methods, including low-resolution biophysical techniques, preliminary...”
- Amino acid transport in thermophiles: characterization of an arginine-binding protein in Thermotoga maritima
Luchansky, Molecular bioSystems 2010 (PubMed)- “...highly stable and specific periplasmic arginine-binding protein (TM0593). Following signal sequence removal and overexpression in Escherichia coli, TM0593 was...”
- “...across bacterial membranes. Purified and refolded TM0593 was further characterized by fluorescence spectroscopy, mass spectrometry, and circular dichroism...”
- Analysis of the Thermotoga maritima genome combining a variety of sequence similarity and genome context tools
Kyrpides, Nucleic acids research 2000 - “...regulators TM0186 and TM0842, and the ABC transporters TM0593 and Nucleic Acids Research, 2000, Vol. 28, No. 22 4575 Figure 2. Inferred functional coupling...”
- Development of a Protein Scaffold for Arginine Sensing Generated through the Dissection of the Arginine-Binding Protein from Thermotoga maritima
Smaldone, International journal of molecular sciences 2020 - “...Methods 4.1. Notations Wild-type TmArgBP is a dimeric protein made of 247 residues (UniProtKB - Q9WZ62). Its N -terminal end (residues 119) is the signal peptide responsible for the periplasmic localization of the protein. Since this region is highly hydrophobic, it is typically removed in the...”
- The non-swapped monomeric structure of the arginine-binding protein from Thermotoga maritima
Smaldone, Acta crystallographica. Section F, Structural biology communications 2019 - “...residues 20-246 of the protein sequence (UniProt code Q9WZ62). This region corresponds to the entire protein deprived of the signal sequence for its periplasmic...”
- The characterization of Thermotoga maritima Arginine Binding Protein variants demonstrates that minimal local strains have an important impact on protein stability
Balasco, Scientific reports 2019 - “...C-terminal swapping helix and part of the hinge peptide of the protein sequence (UniProt code Q9WZ62). Mutant of this short form of the protein were designed by replacing Gly52 with Ala or Val. The genes encoding the Gly52Ala and Gly52Val mutations were obtained by site directed...”
- A loose domain swapping organization confers a remarkable stability to the dimeric structure of the arginine binding protein from Thermotoga maritima
Ruggiero, PloS one 2014 - “...protein used in these studies includes the residues 20246 of the protein sequence (UniProt code Q9WZ62). This region corresponds to the entire protein deprived of the signal sequence for its perisplasmic exporting. TmArgBP was expressed by using E. coli Rosetta(DE3)2 cells following the procedure described in...”
- Crystallization and preliminary X-ray crystallographic analysis of ligand-free and arginine-bound forms of Thermotoga maritima arginine-binding protein
Ruggiero, Acta crystallographica. Section F, Structural biology and crystallization communications 2011 - “...20-246 (227 residues) of the protein sequence (UniProt code Q9WZ62). This sequence region was cloned into the NdeI-BamHI site of a pET21a vector. The resulting...”
lp_0802 amino acid ABC transporter substrate-binding protein/permease from Lactiplantibacillus plantarum WCFS1
lp_0802 glutamine ABC transporter, substrate binding and permease protein from Lactobacillus plantarum WCFS1
29% identity, 52% coverage
- Molecular Responses of Lactobacilli to Plant Phenolic Compounds: A Comparative Review of the Mechanisms Involved
López, Antioxidants (Basel, Switzerland) 2021 - “...), aspartate ammonia lyase which produces ammonium ( asnB ), a Gln ABC transporter ( lp_0802 and lp_0803 ), and the ammonium transporter protein ( amtB ). The observed profile agrees with a tight control of intracellular ammonia levels, the previously proposed regulatory function of GlnR...”
- Transcriptomic Evidence of Molecular Mechanisms Underlying the Response of Lactobacillus Plantarum WCFS1 to Hydroxytyrosol
Reverón, Antioxidants (Basel, Switzerland) 2020 - “...or glnA (glutamine synthetase), lp_0822 (glutamine-fructose-6-P transaminase), genes coding for two Gln ABC transporters ( lp_0802 and lp_0803 ) ( lp_2110 and lp_2111 ), lp_2830 (aspartate ammonia lyase which produces fumarate from Asp with the production of ammonium), lp_0956 or asnC (Asn-tRNA ligase) and lp_0349 or...”
- Molecular adaptation of Lactobacillus plantarum WCFS1 to gallic acid revealed by genome-scale transcriptomic signature and physiological analysis
Reverón, Microbial cell factories 2015 - “...i.e. glnA (glutamine synthetase), lp_0822 (glutamine-fructose-6-phosphate transaminase), genes coding for a Gln ABC transporter ( lp_0802 and lp_0803 ), lp_2830 (aspartate ammonia-lyase which produces fumarate from Asp with the production of ammonium), amtB (NH 4 + transport protein), were all downregulated. Among the genes involved in...”
- “...( lp_2830 ), amtB ( lp_0349 ) and a glnPHQ glutamine ABC transport system ( lp_0802 and lp_0803 ) fitting with the previously predicted GlnR regulon architecture [ 20 ]. Besides GlnR, another GA-responsive regulons of L. plantarum were the regulon Lp_2742 ( http://regprecise.lbl.gov/RegPrecise/regulon.jsp ) encompassing...”
SSU1853 amino-acid ABC transporter extracellular-binding protein from Streptococcus suis P1/7
SSUBM407_1923 amino-acid ABC transporter extracellular-binding protein from Streptococcus suis BM407
29% identity, 88% coverage
LSA1497 Putative glutamine/glutamate ABC transporter, membrane-spanning/substrate-binding subunit precursor from Lactobacillus sakei subsp. sakei 23K
30% identity, 47% coverage
- Global transcriptome response in Lactobacillus sakei during growth on ribose
McLeod, BMC microbiology 2011 - “...Putative amino acid:H(+) symporter 1.0 0.8 LSA1496 lsa1496 Putative glutamine/glutamate ABC transporter, ATP-binding subunit 1.2 LSA1497 lsa1497 Putative glutamine/glutamate ABC transporter, membrane-spanning/substrate-binding subunit precursor 0.7 Transport/binding of proteins/peptides LSA0702 oppA Oligopeptide ABC transporter, substrate-binding lipoprotein precursor 1.3 1.0 LSA0703 oppB Oligopeptide ABC transporter, membrane-spanning subunit 0.8...”
B9H01_RS09940 amino acid ABC transporter substrate-binding protein from Streptococcus suis
29% identity, 90% coverage
BC4150 Arginine-binding protein from Bacillus cereus ATCC 14579
29% identity, 95% coverage
BC0872 Cystine-binding protein from Bacillus cereus ATCC 14579
28% identity, 95% coverage
Dde_0186 Arginine 3rd transport system periplasmic binding protein from Desulfovibrio desulfuricans G20
28% identity, 97% coverage
- Shotgun proteomic analysis of nanoparticle-synthesizing Desulfovibrio alaskensis in response to platinum and palladium
Capeness, Microbiology (Reading, England) 2019 - “...3.17 Dde_2642 4Fe4S ferredoxin ironsulfur binding domain-containing protein 2.55 Dde_0444 Peptidase M16 domain protein 2.17 Dde_0186 ABC-type transporter, periplasmic subunit family 3 2.85 Dde_2137 Periplasmic (NiFe) hydrogenase, small subunit, isozyme 1 2.66 Dde_2315 Hypothetical protein Dde_2315 2.12 Dde_0258 Extracellular ligand-binding receptor 2.19 Dde_2138 Cytochrome- c 3...”
- “...by E. coli [ 22 ]. Five other proteins encode putative ABC-type transportation proteins, Dde_0155, Dde_0186 and Dde_0258, an efflux pump, Dde_3627, and Dde_1010, which potentially encodes an outer-membrane porin. Also in this group is a member of the TolC family of type I secretion systems...”
6fxgB / Q9CES5 Crystal structure of substrate binding domain 1 (sbd1) of abc transporter glnpq in complex with asparagine
28% identity, 86% coverage
- Ligand: asparagine (6fxgB)
3i6vA / Q5LTV6 Crystal structure of a periplasmic his/glu/gln/arg/opine family- binding protein from silicibacter pomeroyi in complex with lysine
27% identity, 87% coverage
RHE_RS02695 transporter substrate-binding domain-containing protein from Rhizobium etli CFN 42
28% identity, 77% coverage
- Rhizobium etli CFN42 proteomes showed isoenzymes in free-living and symbiosis with a different transcriptional regulation inferred from a transcriptional regulatory network
Taboada-Castro, Frontiers in microbiology 2022 - “...acid transport regarding ABC.PA. S; the polar amino acid transport system substrate-binding protein, in MM RHE_RS02695, RHE_RS11720, and RHE_RS27400, and in bacteroid RHE_RS07475 and RHE_RS27430 were expressed, potentially regulated by the TFs RHE_RS30745_m3, RHE_RS24110_m2, RHE_RS14135_m3 and RHE_RS18525_m2, RHE_RS26505_m5, respectively. All these data were clustering TF-associated, showing...”
GBAA_0855 amino acid ABC transporter substrate-binding protein from Bacillus anthracis str. 'Ames Ancestor'
BA0855 amino acid ABC transporter, amino acid-binding protein from Bacillus anthracis str. Ames
BAS0812 amino acid ABC transporter, amino acid-binding protein from Bacillus anthracis str. Sterne
28% identity, 95% coverage
- Membrane Proteomes and Ion Transporters in Bacillus anthracis and Bacillus subtilis Dormant and Germinating Spores
Chen, Journal of bacteriology 2019 - “...yhcN yugP spoVAD atpG BAS4323 GBAA_2961 prsA1 GBAA_0855 GBAA_0615 GBAA_3048 GBAA_5684 GBAA_422 cccA psd GBAA_1195 GBAA_1523 GBAA_3927 GBAA_0418 B. subtilis...”
- Effect of over expressing protective antigen on global gene transcription in Bacillus anthracis BH500
Sharma, Scientific reports 2018 - “...control. At the same time, the expression level of amino acid ABC transporter substrate-binding protein GBAA_0855 , amino acid ABC transporter permease GBAA_0856 , and amino acid ABC transporter ATP-binding GBAA_0857 protein, were down regulated 4.37, 6.33, and 8.16 respectively. Also, the complete operon of oligopeptide...”
- Identification of in vivo-expressed immunogenic proteins by serological proteome analysis of the Bacillus anthracis secretome
Chitlaru, Infection and immunity 2007 - “...ABC transporters; eight new immunogenic proteins (BA1191, BA0656, BA0855, BA1197, BA0908, BA5220, BA3645, and pXO1-130) were identified in addition to the six...”
- “...BA0228 BA0267 BA0307 BA0309 BA0345 BA0656 BA0796 BA0799 BA0855 BA0885 BA0887 BA0898 BA0908 BA1075 BA1129 BA1191 BA1197 BA1290 BA1295 BA1436 BA1449 BA1818 BA1952...”
- Differential proteomic analysis of the Bacillus anthracis secretome: distinct plasmid and chromosome CO2-dependent cross talk mechanisms modulate extracellular proteolytic activities
Chitlaru, Journal of bacteriology 2006 - “...8g 9 10 11 17 18 19 20 21 22 23 BA2947 BA0855 BA4750 BA2230 BA3346 BA2944 BA0165 BA3560 BA1952 BA0799 BA0331 BA2793 BA1449 29 30 31 32 33 34 36 37 38 39 40...”
- Search for Bacillus anthracis potential vaccine candidates by a functional genomic-serologic screen
Gat, Infection and immunity 2006 - “...of amino acids or peptides are seropositive (BA0656, BA0855, BA1191, and BA2848 products), and they represented all the amino acid- and oligopeptide-binding...”
- Membrane Proteomes and Ion Transporters in Bacillus anthracis and Bacillus subtilis Dormant and Germinating Spores
Chen, Journal of bacteriology 2019 - “...On the other hand, our results showed that BAS0812 and BAS3922 decreased 5.9- and 3.7-fold, respectively, and BAS0405 increased 2-fold after spore germination,...”
MMP0455 Probable amino-acid ABC transporter from Methanococcus maripaludis S2
25% identity, 96% coverage
SP_0112 amino acid ABC transporter, periplasmic amino acid-binding protein, putative from Streptococcus pneumoniae TIGR4
28% identity, 94% coverage
AH67_03110 ABC transporter substrate-binding protein from Bifidobacterium pseudolongum PV8-2
33% identity, 70% coverage
spr1120 ABC transporter membrane spanning permease - glutamine transport from Streptococcus pneumoniae R6
28% identity, 30% coverage
- Azithromycin resistance mutations in Streptococcus pneumoniae as revealed by a chemogenomic screen
Gingras, Microbial genomics 2020 - “...regions of genes pertaining to glutamine metabolism. Six different non-synonymous mutations were found in genes spr1120 ( glnP , two mutations) and spr1121 ( glnQ , four mutations) respectively coding for the membrane-spanning and ATP-binding domains of the ATP-binding cassette (ABC) transporter GlnPQ ( Table 4...”
- “...Interestingly, a deletion of one nucleotide in the 35 element of the predicted promoter for spr1120 ( glnP ) was detected in mutants M14 and M21 ( Table 4 , Fig. S1a). From its location the mutation is likely to influence the transcription of the gene...”
- Penicillin induces alterations in glutamine metabolism in Streptococcus pneumoniae
El, Scientific reports 2017 - “...factor IF-3 1.20 spr0864 lguL lactoylglutathione lyase 1.20 spr1012 rplU 50S ribosomal protein L21 1.41 spr1120 glnP e amino acid ABC transporter substrate-binding protein 1.36 spr1121 glnQ e amino acid ABC transporter ATP-binding protein 1.05 spr1144 smf DNA processing protein DprA 1.58 spr1208 hypothetical protein 1.00...”
- A Pneumococcal Protein Array as a Platform to Discover Serodiagnostic Antigens Against Infection
Olaya-Abril, Molecular & cellular proteomics : MCP 2015 - “...SP_0348 (97) spr0043 (85), spr0857 (87) spr0012 (84) spr1120 (89), spr1216 (90), spr1887 (100) SPJ_1852 (96), SPP_0072 (94), spr0601 (98), spr1221 (99), spr1496...”
- Characterization of a glutamate transporter operon, glnQHMP, in Streptococcus mutans and its role in acid tolerance
Krastel, Journal of bacteriology 2010 - “...downregulated expression of the glutamine transporter genes spr1120 and spr1121 (36). Similarly, in S. mutans, acid-induced stress results in decreased activity...”
AFA2_00700 ABC transporter substrate-binding protein from Alcaligenes faecalis subsp. faecalis NBRC 13111
30% identity, 94% coverage
- Gene expression analysis of Alcaligenes faecalis during induction of heterotrophic nitrification
Tsujino, Scientific reports 2021 - “...assembly protein SufB 2.35 0.02274 1460.5 287.5 AFA2_00638 Transcriptional regulator SufR 2.36 0.02255 1811.0 354.2 AFA2_00700 Polar amino acid transport system substrate-binding protein 2.28 0.02937 282.6 1374.7 AFA2_00794 yggS family pyridoxal phosphate enzyme 3.30 0.00044 2028.2 207.4 AFA2_00795 Cytoplasmic protein 3.61 0.00012 2262.4 186.1 AFA2_01038 2-Hydroxychromene-2-carboxylate...”
SGO_1037 glutamine ABC transporter permease and substrate binding protein from Streptococcus gordonii str. Challis substr. CH1
31% identity, 51% coverage
- Potential of Prebiotic D-Tagatose for Prevention of Oral Disease
Mayumi, Frontiers in cellular and infection microbiology 2021 - “...S. oralis , the polar amino acid transporter gene (SOR_1115) was up-regulated, whereas SMU_1179c and SGO_1037, orthologous genes of SOR_1115, were down-regulated. These gene expression changes may trigger changes in BCAAs and alanine pools, since glutamate and its substrate glutamine are polar amino acids, and streptococci...”
- Streptococcus gordonii Type I Lipoteichoic Acid Contributes to Surface Protein Biogenesis
Lima, mSphere 2019 - “...Foldase protein GlcK SGO_1144 Glucokinase GdhA SGO_0276 Glutamate dehydrogenase SGO_1036 Glutamine transport system ATP-binding protein SGO_1037 Glutamine transport system substrate-binding protein Gap SGO_0207 Glyceraldehyde 3-phosphate dehydrogenase SGO_0390 Glycerol-3-phosphate dehydrogenase SGO_0164 Glycerol-3-phosphate dehydrogenase SGO_0832 Hypothetical protein SGO_1065 Hypothetical protein SGO_1677 Hypothetical protein SGO_0378 Hypothetical protein SGO_1232 l...”
- Mass Spectrometric Analysis of Whole Secretome and Amylase-precipitated Secretome Proteins from Streptococcus gordonii.
Maddi, Journal of proteomics & bioinformatics 2014 - “...protein domain n 76 3 5.2 Glutamine ABC transporter permease and substrate binding protein * SGO_1037 ABC transporter 53 3 6.4 Thioredoxin family protein SGO_1171 Thioredoxin 18 3 31.2 D-Alanyl-D-Alanine carboxypeptidase * SGO_1585 D-alanyl-D-alanine carboxypeptidase 51 3 6.7 5-nucleotidase, lipoprotein * SGO_1860 Haloaciddehalogenase-like hydrolases 32 3...”
4i62A / A0A0H2ZN67 1.05 angstrom crystal structure of an amino acid abc transporter substrate-binding protein abpa from streptococcus pneumoniae canada mdr_19a bound to l-arginine
29% identity, 86% coverage
4kqpA / Q9CES5 Crystal structure of lactococcus lactis glnp substrate binding domain 2 (sbd2) in complex with glutamine at 0.95 a resolution (see paper)
27% identity, 84% coverage
- Ligand: glutamine (4kqpA)
For advice on how to use these tools together, see
Interactive tools for functional annotation of bacterial genomes.
The PaperBLAST database links 793,807 different protein sequences to 1,259,118 scientific articles. Searches against EuropePMC were last performed on March 13 2025.
PaperBLAST builds a database of protein sequences that are linked
to scientific articles. These links come from automated text searches
against the articles in EuropePMC
and from manually-curated information from GeneRIF, UniProtKB/Swiss-Prot,
BRENDA,
CAZy (as made available by dbCAN),
BioLiP,
CharProtDB,
MetaCyc,
EcoCyc,
TCDB,
REBASE,
the Fitness Browser,
and a subset of the European Nucleotide Archive with the /experiment tag.
Given this database and a protein sequence query,
PaperBLAST uses protein-protein BLAST
to find similar sequences with E < 0.001.
To build the database, we query EuropePMC with locus tags, with RefSeq protein
identifiers, and with UniProt
accessions. We obtain the locus tags from RefSeq or from MicrobesOnline. We use
queries of the form "locus_tag AND genus_name" to try to ensure that
the paper is actually discussing that gene. Because EuropePMC indexes
most recent biomedical papers, even if they are not open access, some
of the links may be to papers that you cannot read or that our
computers cannot read. We query each of these identifiers that
appears in the open access part of EuropePMC, as well as every locus
tag that appears in the 500 most-referenced genomes, so that a gene
may appear in the PaperBLAST results even though none of the papers
that mention it are open access. We also incorporate text-mined links
from EuropePMC that link open access articles to UniProt or RefSeq
identifiers. (This yields some additional links because EuropePMC
uses different heuristics for their text mining than we do.)
For every article that mentions a locus tag, a RefSeq protein
identifier, or a UniProt accession, we try to select one or two
snippets of text that refer to the protein. If we cannot get access to
the full text, we try to select a snippet from the abstract, but
unfortunately, unique identifiers such as locus tags are rarely
provided in abstracts.
PaperBLAST also incorporates manually-curated protein functions:
- Proteins from NCBI's RefSeq are included if a
GeneRIF
entry links the gene to an article in
PubMed®.
GeneRIF also provides a short summary of the article's claim about the
protein, which is shown instead of a snippet.
- Proteins from Swiss-Prot (the curated part of UniProt)
are included if the curators
identified experimental evidence for the protein's function (evidence
code ECO:0000269). For these proteins, the fields of the Swiss-Prot entry that
describe the protein's function are shown (with bold headings).
- Proteins from BRENDA,
a curated database of enzymes, are included if they are linked to a paper in PubMed
and their full sequence is known.
- Every protein from the non-redundant subset of
BioLiP,
a database
of ligand-binding sites and catalytic residues in protein structures, is included. Since BioLiP itself
does not include descriptions of the proteins, those are taken from the
Protein Data Bank.
Descriptions from PDB rely on the original submitter of the
structure and cannot be updated by others, so they may be less reliable.
(For SitesBLAST and Sites on a Tree, we use a larger subset of BioLiP so that every
ligand is represented among a group of structures with similar sequences, but for
PaperBLAST, we use the non-redundant set provided by BioLiP.)
- Every protein from EcoCyc, a curated
database of the proteins in Escherichia coli K-12, is included, regardless
of whether they are characterized or not.
- Proteins from the MetaCyc metabolic pathway database
are included if they are linked to a paper in PubMed and their full sequence is known.
- Proteins from the Transport Classification Database (TCDB)
are included if they have known substrate(s), have reference(s),
and are not described as uncharacterized or putative.
(Some of the references are not visible on the PaperBLAST web site.)
- Every protein from CharProtDB,
a database of experimentally characterized protein annotations, is included.
- Proteins from the CAZy database of carbohydrate-active enzymes
are included if they are associated with an Enzyme Classification number.
Even though CAZy does not provide links from individual protein sequences to papers,
these should all be experimentally-characterized proteins.
- Proteins from the REBASE database
of restriction enzymes are included if they have known specificity.
- Every protein with an evidence-based reannotation (based on mutant phenotypes)
in the Fitness Browser is included.
- Sequence-specific transcription factors (including sigma factors and DNA-binding response regulators)
with experimentally-determined DNA binding sites from the
PRODORIC database of gene regulation in prokaryotes.
- Putative transcription factors from RegPrecise
that have manually-curated predictions for their binding sites. These predictions are based on
conserved putative regulatory sites across genomes that contain similar transcription factors,
so PaperBLAST clusters the TFs at 70% identity and retains just one member of each cluster.
- Coding sequence (CDS) features from the
European Nucleotide Archive (ENA)
are included if the /experiment tag is set (implying that there is experimental evidence for the annotation),
the nucleotide entry links to paper(s) in PubMed,
and the nucleotide entry is from the STD data class
(implying that these are targeted annotated sequences, not from shotgun sequencing).
Also, to filter out genes whose transcription or translation was detected, but whose function
was not studied, nucleotide entries or papers with more than 25 such proteins are excluded.
Descriptions from ENA rely on the original submitter of the
sequence and cannot be updated by others, so they may be less reliable.
Except for GeneRIF and ENA,
the curated entries include a short curated
description of the protein's function.
For entries from BioLiP, the protein's function may not be known beyond binding to the ligand.
Many of these entries also link to articles in PubMed.
For more information see the
PaperBLAST paper (mSystems 2017)
or the code.
You can download PaperBLAST's database here.
Changes to PaperBLAST since the paper was written:
- November 2023: incorporated PRODORIC and RegPrecise. Many PRODORIC entries were not linked to a protein sequence (no UniProt identifier), so we added this information.
- February 2023: BioLiP changed their download format. PaperBLAST now includes their non-redundant subset. SitesBLAST and Sites on a Tree use a larger non-redundant subset that ensures that every ligand is represented within each cluster. This should ensure that every binding site is represented.
- June 2022: incorporated some coding sequences from ENA with the /experiment tag.
- March 2022: incorporated BioLiP.
- April 2020: incorporated TCDB.
- April 2019: EuropePMC now returns table entries in their search results. This has expanded PaperBLAST's database, but most of the new entries are of low relevance, and the resulting snippets are often just lists of locus tags with annotations.
- February 2018: the alignment page reports the conservation of the hit's functional sites (if available from from Swiss-Prot or UniProt)
- January 2018: incorporated BRENDA.
- December 2017: incorporated MetaCyc, CharProtDB, CAZy, REBASE, and the reannotations from the Fitness Browser.
- September 2017: EuropePMC no longer returns some table entries in their search results. This has shrunk PaperBLAST's database, but has also reduced the number of low-relevance hits.
Many of these changes are described in Interactive tools for functional annotation of bacterial genomes.
PaperBLAST cannot provide snippets for many of the papers that are
published in non-open-access journals. This limitation applies even if
the paper is marked as "free" on the publisher's web site and is
available in PubmedCentral or EuropePMC. If a journal that you publish
in is marked as "secret," please consider publishing elsewhere.
Many important articles are missing from PaperBLAST, either because
the article's full text is not in EuropePMC (as for many older
articles), or because the paper does not mention a protein identifier such as a locus tag, or because of PaperBLAST's heuristics. If you notice an
article that characterizes a protein's function but is missing from
PaperBLAST, please notify the curators at UniProt
or add an entry to GeneRIF.
Entries in either of these databases will eventually be incorporated
into PaperBLAST. Note that to add an entry to UniProt, you will need
to find the UniProt identifier for the protein. If the protein is not
already in UniProt, you can ask them to create an entry. To add an
entry to GeneRIF, you will need an NCBI Gene identifier, but
unfortunately many prokaryotic proteins in RefSeq do not have
corresponding Gene identifers.
References
PaperBLAST: Text-mining papers for information about homologs.
M. N. Price and A. P. Arkin (2017). mSystems, 10.1128/mSystems.00039-17.
Europe PMC in 2017.
M. Levchenko et al (2017). Nucleic Acids Research, 10.1093/nar/gkx1005.
Gene indexing: characterization and analysis of NLM's GeneRIFs.
J. A. Mitchell et al (2003). AMIA Annu Symp Proc 2003:460-464.
UniProt: the universal protein knowledgebase.
The UniProt Consortium (2016). Nucleic Acids Research, 10.1093/nar/gkw1099.
BRENDA in 2017: new perspectives and new tools in BRENDA.
S. Placzek et al (2017). Nucleic Acids Research, 10.1093/nar/gkw952.
The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.
I. M. Keeseler et al (2016). Nucleic Acids Research, 10.1093/nar/gkw1003.
The MetaCyc database of metabolic pathways and enzymes.
R. Caspi et al (2018). Nucleic Acids Research, 10.1093/nar/gkx935.
CharProtDB: a database of experimentally characterized protein annotations.
R. Madupu et al (2012). Nucleic Acids Research, 10.1093/nar/gkr1133.
The carbohydrate-active enzymes database (CAZy) in 2013.
V. Lombard et al (2014). Nucleic Acids Research, 10.1093/nar/gkt1178.
The Transporter Classification Database (TCDB): recent advances
M. H. Saier, Jr. et al (2016). Nucleic Acids Research, 10.1093/nar/gkv1103.
REBASE - a database for DNA restriction and modification: enzymes, genes and genomes.
R. J. Roberts et al (2015). Nucleic Acids Research, 10.1093/nar/gku1046.
Deep annotation of protein function across diverse bacteria from mutant phenotypes.
M. N. Price et al (2016). bioRxiv, 10.1101/072470.
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory