PaperBLAST
PaperBLAST Hits for reanno::pseudo1_N1B4:Pf1N1B4_3432 ABC transporter for L-Arginine and L-Citrulline, permease component 1 (Pseudomonas fluorescens FW300-N1B4) (229 a.a., MLKGYGAVIL...)
Show query sequence
>reanno::pseudo1_N1B4:Pf1N1B4_3432 ABC transporter for L-Arginine and L-Citrulline, permease component 1 (Pseudomonas fluorescens FW300-N1B4)
MLKGYGAVILDGVWLTLQLALSSMVLAIVLGLIGVALRLSPIRWLAWLGDLYSTVIRGIP
DLVLILLIFYGGQDLLNRVAPMFGYDDYIDLNPLAAGIGTLGFIFGAYLSETFRGAFMAI
PKGQAEAGMAYGMSSFQVFFRVLVPQMIRLAIPGFTNNWLVLTKATALISVVGLQDMMFK
AKQAADATREPFTFFLAVAAMYLVITSVSLLALRHLEKRYSVGVRAADL
Running BLASTp...
Found 250 similar proteins in the literature:
Pf1N1B4_3432 ABC transporter for L-Arginine and L-Citrulline, permease component 1 from Pseudomonas fluorescens FW300-N1B4
100% identity, 100% coverage
- mutant phenotype: Specific phenotypes on L-Arginine; L-Citrulline.
PS417_21740 ABC transporter for L-Arginine, permease component 1 from Pseudomonas simiae WCS417
97% identity, 100% coverage
- mutant phenotype: Specific phenotypes on L-Arginine; L-Arginine. KEGG annotation has been updated since the last public release
AO356_18705 L-Arginine ABC transporter, permease component 2 from Pseudomonas fluorescens FW300-N2C3
97% identity, 100% coverage
- mutant phenotype: Specific phenotype on L-Arginine.
Pf6N2E2_5661 L-Arginine ABC transporter, permease protein AotQ from Pseudomonas fluorescens FW300-N2E2
97% identity, 100% coverage
- mutant phenotype: Specific phenotypes on L-Arginine; L-Arginine. no data for ornithine
AO353_03050 ABC transporter for L-Arginine and L-Citrulline, permease component 2 from Pseudomonas fluorescens FW300-N2E3
97% identity, 100% coverage
- mutant phenotype: Specific phenotypes on L-Arginine; L-Arginine; L-Arginine. possibly citrulline as well
PP_4485 basic amino acid ABC transporter, permease protein from Pseudomonas putida KT2440
90% identity, 100% coverage
PA0889 arginine/ornithine transport protein AotQ from Pseudomonas aeruginosa PAO1
82% identity, 100% coverage
- Distinct transcriptome and traits of freshly dispersed <i>Pseudomonas aeruginosa</i> cells
Kalia, mSphere 2024 - “...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 1.291185 Upregulated 0.643439 PA1076 Hypothetical protein 0.10099 Upregulated 0.1182...”
- Responses of carbapenemase-producing and non-producing carbapenem-resistant Pseudomonas aeruginosa strains to meropenem revealed by quantitative tandem mass spectrometry proteomics
Salvà-Serra, Frontiers in microbiology 2022 - “...permease 5 13 1.02 0.91 1.50 0.00 Up 4.69 0.00 Up 1.80 0.00 Lower WP_003085934.1 PA0889 AotQ Arginine/ornithine transport protein AotQ 3 9 1.09 0.58 1.24 0.15 2.04 0.00 Up 1.00 0.98 WP_003085936.1 PA0890 AotM arginine/ornithine transport protein AotM 2 6 1.15 0.42 1.08 0.70 1.64...”
- High-throughput phenotypic characterization of Pseudomonas aeruginosa membrane transport genes
Johnson, PLoS genetics 2008 - “...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 ) PA0892 PAK arginine/ornithine ABC transporter ATP binding protein ( AotP )...”
- “...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 +/ PA0890 arginine/ornithine ABC transporter membrane protein ( AotM ) L-Arginine C - L-Ornithine C - PA0892...”
- Effect of anaerobiosis and nitrate on gene expression in Pseudomonas aeruginosa
Filiatrault, Infection and immunity 2005 - “...PA0744 PA0746 PA0747 PA0782 PA0792 PA0793 PA0795 PA0887 PA0889 PA0910 PA0985 PA1070 PA1071 PA1072 PA1073 PA1173 PA1174 PA1175 PA1249 PA1282 PA1317 PA1318 PA1319...”
- Transcriptome analysis of the ArgR regulon in Pseudomonas aeruginosa
Lu, Journal of bacteriology 2004 - “...2017 by University of California, Berkeley PA0328 PA0888 PA0889 PA0890 PA0891 PA0892 PA0893 PA0895 PA0896 PA0897 PA0898 PA0899 PA0900 PA0901 PA1818 PA1819...”
- Isolation and characterization of Pseudomonas aeruginosa R' plasmids constructed by interspecific mating
Morgan, Journal of bacteriology 1982 - “...as proA or pyrB. Similarly, PPN1053(pMO776) transferred car-9 to PA0889, but did not transfer the flanking marker proB or hisI to PA0888 or PA0903, and...”
TC 3.A.1.3.11 / O50182 AotQ, component of Arginine/ornithine (but not lysine) porter from Pseudomonas aeruginosa (see paper)
aotQ / GI|2668596 arginine/ornithine transport protein from Pseudomonas aeruginosa (see paper)
81% identity, 100% coverage
- substrates: Arginine, Ornithine
PBPRA2740 putative ABC-type arginine transport system, permease component from Photobacterium profundum SS9
49% identity, 91% coverage
- Protein evolution in deep sea bacteria: an analysis of amino acids substitution rates
Campanaro, BMC evolutionary biology 2008 - “...ABC transporter: "hypohetical ABC transporter, permease protein" (PBPRA2115); "putative ABC-type arginine transport system, permease component" (PBPRA2740); "putative ABC-type metal ion transport system, permease component" (PBPRA2941). The remaining are a "periplasmic peptide binding protein" belonging to a putative peptide ABC transporter (PBPRA0525) and a "putative glycerol-3-phosphate transporter"...”
BCAM0760 histidine transport system permease from Burkholderia cenocepacia J2315
53% identity, 98% coverage
BPSL1032 histidine transport system permease protein from Burkholderia pseudomallei K96243
53% identity, 100% coverage
hisQ / b2308 lysine/arginine/ornithine ABC transporter / histidine ABC transporter, membrane subunit HisQ (EC 7.4.2.1) from Escherichia coli K-12 substr. MG1655 (see 3 papers)
HISQ_ECOLI / P52094 Histidine/lysine/arginine/ornithine transport system permease protein HisQ from Escherichia coli (strain K12) (see paper)
TC 3.A.1.3.29 / P52094 Histidine transport system permease protein HisQ, 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)
b2308 histidine/lysine/arginine/ornithine transporter subunit from Escherichia coli str. K-12 substr. MG1655
52% identity, 100% coverage
- function: Part of the ABC transporter complex HisPMQJ involved in histidine transport. Is also part of the ABC transporter complex HisPMQ-ArgT involved in lysine/arginine/ornithine transport. Probably responsible for the translocation of the substrate across the membrane.
subunit: The HisPMQJ complex is composed of two ATP-binding proteins (HisP), two transmembrane proteins (HisM and HisQ) and a solute-binding protein (HisJ). The HisPMQ-ArgT complex is composed of two ATP-binding proteins (HisP), two transmembrane proteins (HisM and HisQ) and a solute-binding protein (ArgT). - substrates: Arginine, Histidine, lysine
- 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 - “...transport protein (ABC superfamily, peri_bind) hisQ b2308 Histidine and lysine/arginine/ornithine transport system (ABC superfamily, membrane) idnD b4267...”
HISQ_SALTY / P0A2I9 Histidine/lysine/arginine/ornithine transport system permease protein HisQ from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 5 papers)
TC 3.A.1.3.1 / P0A2I9 Histidine transport system permease protein HisQ aka STM2353, component of Histidine/arginine/lysine/ornithine porter (Heuveling et al. 2014). In contrast to some homologous homodimeric systems, the heterodimeric histidine transporter of Salmonella enterica Typhimurium from Salmonella typhimurium (see 3 papers)
STM14_2899 histidine ABC transporter permease HisQ from Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
NP_461295 histidine and lysine/arginine/ornithine transport system from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
STM2353 ABC superfamily (membrane),histidine and lysine/arginine/ornithine transport system from Salmonella typhimurium LT2
53% identity, 100% coverage
- function: Part of the ABC transporter complex HisPMQJ involved in histidine transport (PubMed:7050725, PubMed:9520394). Is also part of the ABC transporter complex HisPMQ-ArgT involved in lysine/arginine/ornithine transport (PubMed:24021237). Probably responsible for the translocation of the substrate across the membrane (Probable). Required to relay the ATPase-inducing signal from the solute-binding protein to HisP (PubMed:9520394).
subunit: The HisPMQJ complex is composed of two ATP-binding proteins (HisP), two transmembrane proteins (HisM and HisQ) and a solute-binding protein (HisJ) (PubMed:2033074, PubMed:7050725, PubMed:9520394). The HisPMQ-ArgT complex is composed of two ATP-binding proteins (HisP), two transmembrane proteins (HisM and HisQ) and a solute-binding protein (ArgT) (PubMed:24021237). - 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) - 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 - “...hisP histidine/lysine/arginine/ornithine transporter subunit 1.19 0.58936 0.97854 STM14_2898 hisM histidine/lysine/arginine/ornithine transport protein 1.50 0.44912 0.93284 STM14_2899 hisQ histidine/lysine/arginine/ornithine transport protein 0.76 0.59059 0.97854 STM14_5166 yjdE, adiC arginine:agmatin antiporter 1.00 0.58828 0.97854 Arginine metabolism STM14_5357 STM14_5357 putative arginine repressor 2.97 0.14279 0.63919 STM14_5169 adi catabolic arginine decarboxylase...”
- Evidence from Mutational Analysis for a Single Transmembrane Substrate Binding Site in the Histidine ATP-Binding Cassette Transporter of Salmonella enterica Serovar Typhimurium
Heuveling, Journal of bacteriology 2019 - GeneRIF: The authors propose that one substrate molecule is primarily liganded by residues of HisM while HisQ-D61 forms a crucial salt bridge with the alpha-amino group of the substrate.
- “...Typhimurium histidine transporter (GenBank accession no. NP_461295 and NP_461294); AotM_PA and AotQ_PA, membrane-spanning subunits of the Pseudomonas aeruginosa...”
- Evidence from Mutational Analysis for a Single Transmembrane Substrate Binding Site in the Histidine ATP-Binding Cassette Transporter of Salmonella enterica Serovar Typhimurium.
Heuveling, Journal of bacteriology 2019 - GeneRIF: The authors propose that one substrate molecule is primarily liganded by residues of HisM while HisQ-D61 forms a crucial salt bridge with the alpha-amino group of the substrate.
- “...Typhimurium histidine transporter (GenBank accession no. NP_461295 and NP_461294); AotM_PA and AotQ_PA, membrane-spanning subunits of the Pseudomonas aeruginosa...”
- Conformational changes of the bacterial type I ATP-binding cassette importer HisQMP2 at distinct steps of the catalytic cycle.
Heuveling, Biochimica et biophysica acta 2014 (PubMed)- GeneRIF: The functional role for the each HisQ domain in the catalytic transport cycle has been described.
- The second extracellular loop of pore-forming subunits of ATP-binding cassette transporters for basic amino acids plays a crucial role in interaction with the cognate solute binding protein(s)
Eckey, Journal of bacteriology 2010 - “...Typhimurium histidine transporter (GenBank accession no. NP_461295 and NP_461294); and ArtM_GST, membrane-spanning subunit of the arginine transporter of...”
- General response of Salmonella enterica serovar Typhimurium to desiccation: A new role for the virulence factors sopD and sseD in survival
Maserati, PloS one 2017 - “...transporter 3.70 STM1491 osmV proline/glycine betaine transport systems 2.91 STM1379 orf48 amino acid permease 2.51 STM2353 hisQ histidine/lysine/arginine/ornithine transport protein 2.37 STM1893 znuB high-affinity zinc transporter membrane protein 2.28 STM1806 nhaB sodium/proton antiporter 2.28 STM0835 STM0835 manganese transport transcriptional regulator MntR 2.05 STM0568 pheP phenylalanine transporter...”
CXG97_RS13545 histidine ABC transporter permease HisQ from Escherichia coli
52% identity, 100% coverage
ECs3192 histidine transport system permease protein from Escherichia coli O157:H7 str. Sakai
Z3570 histidine transport system permease protein from Escherichia coli O157:H7 EDL933
BC33_RS10395 histidine ABC transporter permease HisQ from Escherichia coli ATCC 700728
52% identity, 100% coverage
WU75_09660 ABC transporter permease from Vibrio parahaemolyticus
48% identity, 91% coverage
ACICU_RS12510 ABC transporter permease from Acinetobacter baumannii ACICU
51% identity, 99% coverage
ABAYE1178 histidine transport system permease ABC transporter membrane protein from Acinetobacter baumannii AYE
51% identity, 99% coverage
A7P62_RS18080 histidine ABC transporter permease HisQ from Pantoea agglomerans pv. gypsophilae
52% identity, 100% coverage
BCAL1055 histidine transport system permease protein from Burkholderia cenocepacia J2315
51% identity, 100% coverage
- The Small RNA ncS35 Regulates Growth in Burkholderia cenocepacia J2315
Kiekens, mSphere 2018 - “...formamidase BCAL2791 1.9 10.6 Kynureninase BCAL2792 12.3 3.5 Tryptophan 2,3-dioxygenase Amino acid transport and metabolism BCAL1055 2.6 2.1 1.7 Histidine transport system permease protein BCAL1059 2.3 Succinylornithine transaminase BCAL1060 2.6 Arginine N -succinyltransferase BCAL1064 2.3 Succinylglutamate desuccinylase BCAL2933 4.0 4.0 2.4 d -Amino acid dehydrogenase Carbohydrate...”
- Burkholderia cenocepacia differential gene expression during host-pathogen interactions and adaptation to the host environment
O'Grady, Frontiers in cellular and infection microbiology 2011 - “...BCAL0842 Putative membrane protein 2.26 BCAL0928 Conserved hypothetical protein 3.58 BCAL0947 Putative membrane protein 1.55 BCAL1055 Histidine transport system permease protein 1.74 BCAL1056 Histidine transport system permease protein 1.81 BCAL1057 Histidine ABC transporter ATP-binding protein 1.98 BCAL1058 AraC family regulatory protein 2.22 BCAL1059 Succinylornithine transaminase 1.81...”
PSPTO4137 amino acid ABC transporter, permease protein from Pseudomonas syringae pv. tomato str. DC3000
48% identity, 96% coverage
PA2924 histidine transport system permease HisQ from Pseudomonas aeruginosa PAO1
50% identity, 98% coverage
PA14_26230 histidine transport system permease protein from Pseudomonas aeruginosa UCBPP-PA14
50% identity, 98% coverage
BTH_I1771 amino acid ABC transporter, permease protein from Burkholderia thailandensis E264
50% identity, 100% coverage
BPHYT_RS07675 ABC transporter for L-Arginine, permease component 2 from Burkholderia phytofirmans PsJN
50% identity, 100% coverage
- mutant phenotype: Very important for utilization of L-arginine
Pf6N2E2_2959 ABC transporter for L-Lysine, permease component 1 from Pseudomonas fluorescens FW300-N2E2
46% identity, 93% coverage
- mutant phenotype: Specific phenotypes on L-Lysine. Also important on gly-glu. There is another dedicated transporter for the dipeptide gly-glu so the basis of that phenotype is unclear.
AO356_05500 ABC transporter for L-Lysine, permease component 1 from Pseudomonas fluorescens FW300-N2C3
47% identity, 93% coverage
- mutant phenotype: Specific phenotypes on L-Lysine; L-Lysine. Note that this organism has a second ABC transporter operon that is important for lysine utilization, which is not explained.
TC 3.A.1.3.23 / Q9HU30 Probable permease of ABC transporter, 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)
PA5154 probable permease of ABC transporter from Pseudomonas aeruginosa PAO1
43% identity, 96% coverage
AO356_09905 ABC transporter for L-Lysine, permease component 1 from Pseudomonas fluorescens FW300-N2C3
44% identity, 96% 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.
PP0281 amino acid ABC transporter, permease protein from Pseudomonas putida KT2440
41% identity, 99% coverage
VPA0638 arginine ABC transporter, permease protein from Vibrio parahaemolyticus RIMD 2210633
36% identity, 96% coverage
N646_4486 arginine ABC transporter permease ArtQ from Vibrio alginolyticus NBRC 15630 = ATCC 17749
35% identity, 97% coverage
ECA4082 ABC transporter permease from Pectobacterium atrosepticum SCRI1043
37% identity, 94% coverage
- Global Gene Expression Analysis of Cross-Protected Phenotype of Pectobacterium atrosepticum
Gorshkov, PloS one 2017 - “...down-regulated under starvation genes belonging to different pathways were chosen for the verification: up-regulatedECA0999, ECA3238, ECA4082, ECA4065, ECA0049, ECA1065, ECA1216, ECA3920, ECA4477, ECA1059, ECA1166, ECA1540, ECA2013, ECA2873, ECA2226; down-regulatedECA3054, ECA3682, ECA4006, ECA4513, ECA1141, ECA1232, ECA4461, ECA1407, ECA2651, ECA4079, ECA0260, ECA0255, ECA0238, ECA3343, ECA3814. Total RNA was...”
BPHYT_RS24005 L-histidine ABC transporter, permease component 1 from Burkholderia phytofirmans PsJN
38% identity, 86% coverage
- mutant phenotype: Specifically important for histidine utilization.
FPV33_RS16875 arginine ABC transporter permease ArtQ from Klebsiella aerogenes
36% identity, 86% coverage
TC 3.A.1.3.6 / P35118 NocQ aka ATU6026 aka AGR_PTI_66, component of Nopaline porter from Agrobacterium tumefaciens (see 3 papers)
Atu6026 ABC transporter, membrane spanning protein (nopaline) from Agrobacterium tumefaciens str. C58 (Cereon)
39% identity, 94% coverage
BCAN_A0965 amino acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family from Brucella canis ATCC 23365
BR0953 amino acid ABC transporter, permease protein from Brucella suis 1330
39% identity, 86% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...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 acid import BP BR0862 BOV_A0903 96 UVR DNA repair ABC2 BMEI0878 BruAb1110, UvrA UvrA BOV_1063 BCAN_A1124 97...”
- The first human case report of molecularly confirmed co-infection of Brucella melitensis and Coxiella burnetii: A case report
Mangkalamanee, Heliyon 2024 - “...(CDS) for multiplex PCR to identify species of Brucella spp. Table 2 CDS names BR0 BR0953 BMEI BMEI10752, BMEI1435, BMEI1436, BMEI0535, BMEI0536, BMEI0997 BMEI0998 BMEII BMEII0987, BMEII0428, BMEII0843, BMEII0844 Serological tests were done after treatment because the lab test was not available at the time of...”
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...B. melitensis . 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...”
- “...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 acid import BP BR0862 BOV_A0903 96 UVR DNA repair ABC2 BMEI0878 BruAb1110, UvrA UvrA BOV_1063 BCAN_A1124...”
- Molecular targets for rapid identification of Brucella spp
Ratushna, BMC microbiology 2006 - “...hypothetical protein 1 BR0952 (924995 .. 925828) 834 amino acid ABC transporter, permease protein 1 BR0953 (925831..926553) 723 amino acid ABC transporter, permease protein 1 BR0954 (926569..926748) 180 hypothetical protein 1 BR1060 (1030564 .. 1031664) BMEI0926 957356 .. 957958 1101/603 multidrug resistance protein A, HlyD family...”
- “...putative amino acid ABC transporter, permease protein 396 + + - - - - 2 BR0953 putative amino acid ABC transporter, permease protein 438 + + - - - - 3 BR0954 hypothetical protein 153 + + - - - - 4 BR1846 hypothetical protein 721...”
t2007 arginine transport system permease protein ArtQ from Salmonella enterica subsp. enterica serovar Typhi Ty2
35% identity, 90% coverage
Z1092 arginine 3rd transport system permease protein from Escherichia coli O157:H7 EDL933
35% identity, 86% coverage
- Outer membrane vesicles as a platform for the discovery of antibodies to bacterial pathogens
Lei, Applied microbiology and biotechnology 2024 - “...OMVs derived from three strains of N. meningitidis with diverse serological classifications (M1090, BZ198, and Z1092) (Moe et al. 2002 ). Hybridoma supernatants were screened for bacterial cell binding and bactericidal activity, resulting in the discovery of mAb 14C7 (IgG3). In the same study, the mAb...”
- “...WB, WC-RIA, passive transfer Helminen et al. ( 1994 ) Neisseria meningitidis M1090, BZ198, and Z1092 CD-1 mouse nOMV i.p., 5 ug OMV with alum on days 0, 21, and 42 IgG3 14C7, binds NspA CDBA, passive transfer Moe et al. ( 2002 ) Neisseria meningitidis...”
- Validation of a Bioinformatics Workflow for Routine Analysis of Whole-Genome Sequencing Data and Related Challenges for Pathogen Typing in a European National Reference Center: Neisseria meningitidis as a Proof-of-Concept
Bogaerts, Frontiers in microbiology 2019 - “...detect mtrE . aac ( 2 ) was not detected by our workflow in sample Z1092 in run B, and was therefore classified as a FN. The ensuing confusion matrix is presented in Supplementary Table S15 , and results in an accuracy, precision, sensitivity, and specificity...”
- Immunization with recombinant truncated Neisseria meningitidis-Macrophage Infectivity Potentiator (rT-Nm-MIP) protein induces murine antibodies that are cross-reactive and bactericidal for Neisseria gonorrhoeae
Humbert, Vaccine 2018 - “...Isolate Bank ( https://www.cdc.gov/drugresistance/resistance-bank/currently-available.html ). Organism Strain Serogroup Provenance Neisseria meningitidis Z1534 A NIPH, Norway Z1092 A NIPH, Norway MC58 B [16] MC168 B [16] MC90 B [16] MC54 B [16] M15 240139 B PHE, Manchester M15 240337 B PHE, Manchester M15 240973 B PHE, Manchester...”
- “...against M2 Nm-MIP protein on the surface of (A) MC168 (MenB), (B) MC173 (MenC), (C) Z1092 (MenA), (D) Z1534 (MenA), (E) M11 240,441 (MenW), (F) M12 240,717 (MenY), (G) M15 240,043 (MenY), and (H) M16 240,363 (MenY) WT strains. The pink area shows no reactivity of...”
- The meningococcal vaccine candidate neisserial surface protein A (NspA) binds to factor H and enhances meningococcal resistance to complement
Lewis, PLoS pathogens 2010 - “...fragment was ligated into a 700 bp region upstream of nspA amplified by PCR from Z1092 genomic DNA using primers 5-CATAAGCTTCGTAGCGGTATCCGGCTGC-3 and 5-CGCTGCCGAAGATTTGCCGGCAAATCTTCGGCAGCG-3 . This, in turn, was ligated into the EcoR I and Hind III sites of the cloning vector pGEM3zf(-) (Promega Corporation, Madison, Wisconsin)....”
- “...upstream of the porA promoter within the fragment upstream of nspA . N. meningitidis strain Z1092 was transformed by adding plasmid DNA in 10 mM MgCl 2 to colonies of Z1092 and incubating at 37C enriched with 5% CO 2 for 5 hours prior to plating...”
- Meningococcal outer membrane vesicle vaccines derived from mutant strains engineered to express factor H binding proteins from antigenic variant groups 1 and 2
Koeberling, Clinical and vaccine immunology : CVI 2009 - “...Berkeley H44/76 NZ98/254a GB200 SK66 SK94 MD1412 GB101 Z1092 4243 M2197 8047b 2996c GB013 MD1248 M1239 03S-0451 Country of origin 158 KOEBERLING ET AL....”
- Protective antibody responses elicited by a meningococcal outer membrane vesicle vaccine with overexpressed genome-derived neisserial antigen 1870
Hou, The Journal of infectious diseases 2005 - “...5 also shows the bactericidal responses against strains Z1092 and NZ98/254. Both strains express PorA molecules that are heterologous with that of the RM1090...”
- “...al. Page 6 NIH-PA Author Manuscript responses against strain Z1092 than mice immunized with the rGNA1870 protein vaccine (bar 6; P < .02) or mice immunized with...”
- Sequential immunization with vesicles prepared from heterologous Neisseria meningitidis strains elicits broadly protective serum antibodies to group B strains
Moe, Infection and immunity 2002 - “...sequence types for strains 8047, NMB, RM1090, and Z1092 were determined by I. Feavers, National Institute for Biological Standards and Control (NIBSC) (United...”
- “...20C until used for preparation of OMV (strain Z1092 OMV only). Microvesicles (MV) were harvested from the phenol-treated cell-free culture supernatant by adding...”
ArtQ / b0862 L-arginine ABC transporter membrane subunit ArtQ (EC 7.4.2.1) from Escherichia coli K-12 substr. MG1655 (see 2 papers)
ArtQ / P0AE34 L-arginine ABC transporter membrane subunit ArtQ (EC 7.4.2.1) from Escherichia coli (strain K12) (see 2 papers)
ARTQ_ECOLI / P0AE34 Arginine ABC transporter permease protein ArtQ from Escherichia coli (strain K12) (see paper)
TC 3.A.1.3.3 / P0AE34 Arginine transport system permease protein ArtQ aka B0862, component of Arginine porter from Escherichia coli (see 6 papers)
35% identity, 86% coverage
- function: Part of the ABC transporter complex ArtPIQMJ involved in arginine transport. Probably responsible for the translocation of the substrate across the membrane.
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 - “...YCCF Function unknown Cell inner membrane 532 P0AD27 YEJM Function unknown Cell inner membrane 533 P0AE34 ARTQ Function unknown Cell inner membrane 534 P0AE74 CITT Inorganic ion transport and metabolism Cell inner membrane 535 P0AFF0 NUON Energy production and conversion Cell inner membrane 536 P0AFK4 POTB...”
YPO1350 arginine transport system permease protein from Yersinia pestis CO92
35% identity, 90% coverage
SG1094 arginine ABC transporter permease component from Sodalis glossinidius str. 'morsitans'
40% identity, 87% coverage
SMa0493 putative ABC transporter, permease from Sinorhizobium meliloti 1021
39% identity, 87% coverage
TC 3.A.1.3.5 / P0A4N5 Octopine transport system permease protein occQ, component of Octopine porter from Agrobacterium tumefaciens (see 2 papers)
38% identity, 94% coverage
Bcep1808_5570 polar amino acid ABC transporter, inner membrane subunit from Burkholderia vietnamiensis G4
40% identity, 86% coverage
- Differential Expression and PAH Degradation: What Burkholderia vietnamiensis G4 Can Tell Us?
Cauduro, International journal of microbiology 2020 - “...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 solutes...”
SMc00139 L-lysine ABC transporter, permease component 1 from Sinorhizobium meliloti 1021
36% identity, 82% coverage
- mutant phenotype: Specifically important for L-lysine utilization. The ATPase component is not encoded nearby and was not evident in the fitness data.
PP_3594 L-lysine and D-lysine ABC transporter, permease component 1 from Pseudomonas putida KT2440
PP3594 amino acid ABC transporter, permease protein from Pseudomonas putida KT2440
37% identity, 94% coverage
- mutant phenotype: Specifically important for utilization of L-lysine and D-lysine.
- Identification of the initial steps in D-lysine catabolism in Pseudomonas putida
Revelles, Journal of bacteriology 2007 - “...primers; lane 2, RT-PCR based on ORF PP3593 and ORF PP3594 primers; lane 3, RT-PCR based on ORF PP3594 and ORF PP3595 primers; lane 4, RT-PCR based on ORF...”
- “...to 7 nucleotides). BLAST analyses revealed that PP3593, PP3594, PP3595, and PP3597 are members of ABC transporter systems and that PP3596 exhibits high...”
NTHI1346 arginine transporter permease subunit ArtQ from Haemophilus influenzae 86-028NP
37% identity, 75% coverage
HI1178 arginine ABC transporter, permease protein (artQ) from Haemophilus influenzae Rd KW20
37% identity, 75% coverage
SERP2004 amino acid ABC transporter, permease protein from Staphylococcus epidermidis RP62A
33% identity, 94% coverage
- Toxin Mediates Sepsis Caused by Methicillin-Resistant Staphylococcus epidermidis
Qin, PLoS pathogens 2017 - “...keto acid dehydrogenase complex, E3 component, lipoamide dehydrogenase -7.46 cysC SERP2185 adenylylsulfate kinase -7.41 - SERP2004 amino acid ABC transporter permease -6.80 lacE SERP1790 PTS system, lactose-specific IIBC components -6.80 - SERP1980 nitrite extrusion protein -5.78 cysI SERP2190 sulfite reductase subunit beta -5.74 lacG SERP1789 6-phospho-beta-galactosidase...”
TcyL / b1918 cystine ABC transporter membrane subunit (EC 7.4.2.12) from Escherichia coli K-12 substr. MG1655 (see 6 papers)
tcyL / P0AFT2 cystine ABC transporter membrane subunit (EC 7.4.2.12) from Escherichia coli (strain K12) (see 3 papers)
TCYL_ECOLI / P0AFT2 L-cystine transport system permease protein TcyL from Escherichia coli (strain K12) (see 5 papers)
TC 3.A.1.3.10 / P0AFT2 Inner membrane amino-acid ABC transporter permease protein YECS CysY aka B1918, component of Cystine/cysteine/diaminopimelate transporter, CysXYZ; these proteins are also designated FliY/YecS/YecC from Escherichia coli (see 4 papers)
S2057 putative transport system permease protein (former yecC) from Shigella flexneri 2a str. 2457T
UTI89_C2119 putative transport system permease protein from Escherichia coli UTI89
b1918 predicted transporter subunit: membrane component of ABC superfamily from Escherichia coli str. K-12 substr. MG1655
32% identity, 95% 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). Responsible for the translocation of the substrate across the membrane (Probable).
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 decreases uptake of cystine (PubMed:25837721). The tcyL-tcyP double mutant cannot grow in the minimal medium containing L-cystine as a sole sulfur source is completely resistant to both L-selenaproline and L-selenocystine (PubMed:25139244, 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) - Development and validation of a resistance and virulence gene microarray targeting Escherichia coli and Salmonella enterica
Davis, Journal of microbiological methods 2010 - “.... Seven isolates were assayed twice ( Supplementary Table 1 ), Salmonella enterica serovar Typhimurium S2057 was assayed four times, and E. coli O157:H7 EDL933 ( Perna, et al., 2001 ) was assayed five times by the same technician. These data were used to calculate Kappa...”
- “...EDL933 was 0.67 (0.41, 0.92) and for 4 replicate assays of Salmonella enterica serovar Typhimurium S2057 was 0.83 (0.63, 1.0). 3b. Inter-rater reliability The ICC for all four laboratories over all probes was 0.27 (95% confidence interval (CI) 0.24, 0.29). The Kappa statistic for each laboratory...”
- R-factor cointegrate formation in Salmonella typhimurium bacteriophage type 201 strains
Helmuth, Journal of bacteriology 1981 - “...M346 S2049 S. typhimurium S. typhimurium S2050 S. typhimurium S2057 S. typhimurium S2060 S. typhimurium BB1 E. coli BB4 E. coli BB53 S. typhimurium BB67 S....”
- “...with regard to the plasmid banding pattern. Strains S2049 and S2057 differed from the other strains only in the lack of the 3.2-Md plasmid (Fig. 1, track 3)....”
- Genetic requirements for uropathogenic <i>E. coli</i> proliferation in the bladder cell infection cycle
Mediati, mSystems 2024 - “...2.85E-02 4.48E-01 ( 42 ) UTI89_C0235 aspV Aspartate tRNA 3.28 2.80E-02 4.59E-01 ( 43 ) UTI89_C2119 yecS Cystine ABC transporter integral membrane subunit 2.78 3.24E-02 4.86E-01 This study UTI89_C3724 yrdA -Class carbonic anhydrase (pH regulation) 2.78 3.11E-03 1.35E-01 This study UTI89_C0070 Hypothetical protein 2.57 1.68E-02 3.25E-01...”
- 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 - “...ATP-binding component of a transport system yecS b1918 Putative amino acid transport protein (ABC superfamily, membrane) 5432 J. BACTERIOL. WHITE-ZIEGLER ET...”
- Sulfur and nitrogen limitation in Escherichia coli K-12: specific homeostatic responses
Gyaneshwar, Journal of bacteriology 2005 - “...to be a misnomer (37). ASAP designates fliY, yecS (b1918), and yecC (b1917) components of an ABC transporter and includes yecS and yecC in the operon. ASAP...”
- DNA microarray analyses of the long-term adaptive response of Escherichia coli to acetate and propionate
Polen, Applied and environmental microbiology 2003 - “...Gene Operon organization Function Name Acetate Propionate NaCl b1918 b1919 b1920 yecC b1919 fliY 1 1 1 Putative transport system permease protein Putative...”
STM1952 putative ABC-type amino acid transporter, permease component from Salmonella typhimurium LT2
34% identity, 87% coverage
- Analysis of In Vivo Transcriptome of Intracellular Bacterial Pathogen Salmonella enterica serovar Typhmurium Isolated from Mouse Spleen
Sun, Pathogens (Basel, Switzerland) 2021 - “...], bioA , bioD , ugtl [ 44 , 45 ], ugd [ 46 ], STM1952 , cysH , sspH2 [ 47 ], entC , Fe-S , pqaB [ 48 ]; Antimicrobial resistance protein 3 virK [ 49 ], mig-14 [ 50 ], pagP [ 44...”
- The Rcs phosphorelay system is specific to enteric pathogens/commensals and activates ydeI, a gene important for persistent Salmonella infection of mice
Erickson, Molecular microbiology 2006 - “...STM1515 STM1492 STM3363 STM2311 STM2795 STM1589 STM1284 STM4451 STM0615 STM1952 STM0680 flgD flgB tufA rplP cdh osmY +7.83 1.43 +6.42 1.56 +2.64 1.15 +1.86 1.10...”
SAEMRSA15_23120 amino acid ABC transporter permease from Staphylococcus aureus subsp. aureus HO 5096 0412
SAR2503 transport system membrane protein from Staphylococcus aureus subsp. aureus MRSA252
34% identity, 85% coverage
- Extensive remodelling of the cell wall during the development of Staphylococcus aureus bacteraemia
Douglas, eLife 2023 - “...Alcohol dehydrogenase 2.257841 NE1147 1196127 SAEMRSA15_10750 yfhO 2.212486 NE1597 408213 SAEMRSA15_03430 guaA 1.876101 N/A 2492381 SAEMRSA15_23120 tcyB 1.645759 NE228 1514441 SAEMRSA15_13420 Hypothetical protein 1.600037 NE1349 2430758 SAEMRSA15_22540 tcaA 1.572702 NE285 134276 SAEMRSA15_01100 Hypothetical protein 1.358386 NE599 b SNP position CC30 locus tag Description Log p-Value NTML...”
- Extensive re-modelling of the cell wall during the development ofStaphylococcus aureusbacteraemia
Douglas, 2023 - Transcriptomic and Metabolomic Analysis of a Fusidic Acid-Selected fusA Mutant of Staphylococcus aureus
Gupta, Antibiotics (Basel, Switzerland) 2022 - “...SAV1380, and SAV1381) were upregulated in SH10001st-2, 8 other genes in this category (SACOL1476, SACOL2453, SAR2503, SAV0722, SAS0283, SAV2412, opuCA , and proP ) were downregulated ( Tables S1 and S2 ). At the same time, there were more amino acid biosynthesis genes downregulated ( argF...”
BCAS0443 putative binding-protein-dependent transport system component from Burkholderia cenocepacia J2315
37% identity, 92% coverage
- 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 acyl-CoA dehydrogenase 2.1 BCAM2237 Putative 2,2-dialkylglycine decarboxylase 2.4 BCAS0397 Metallo peptidase, subfamily M20D 2.0 BCAS0443 Putative binding-protein-dependent transport 5.3 BCAS0574 Amino acid ABC transporter ATP-binding protein 3.7 BCAS0575 Putative binding-protein-dependent transport 2.0 BCAS0577 Periplasmic solute-binding protein 1.5 MEMBRANE PROTEINS BCAL0403 Putative outer membrane-bound lytic murein...”
- “...ketopantoate reductase 1.58 BCAS0397 Metallo peptidase, subfamily M20D 2.01 BCAS0436 AraC family regulatory protein 1.66 BCAS0443 Putative binding-protein-dependent transport 5.32 BCAS0449 Putative binding-protein-dependent transport 1.62 BCAS0461 Putative lipoprotein 3.69 BCAS0463 Putative membrane protein 1.64 BCAS0477 Putative lipoprotein 2.07 BCAS0482 Conserved hypothetical protein 4.89 c BCAS0513 Putative...”
NWMN_2312 amino acid ABC transporter, permease protein from Staphylococcus aureus subsp. aureus str. Newman
Q2FVL3 Amino acid ABC transproter, permease protein, putative from Staphylococcus aureus (strain NCTC 8325 / PS 47)
SAOUHSC_02698 amino acid ABC transproter, permease protein, putative from Staphylococcus aureus subsp. aureus NCTC 8325
SAUSA300_2358 ABC transporter, permease protein from Staphylococcus aureus subsp. aureus USA300_FPR3757
B4602_RS12705, SATW20_25430 amino acid ABC transporter permease from Staphylococcus aureus M1179
34% identity, 85% coverage
- Sulfide Homeostasis and Nitroxyl Intersect via Formation of Reactive Sulfur Species in Staphylococcus aureus
Peng, mSphere 2017 - “...antigen precursor SsaA NWMN_2265 SA2153 5.5 Hypothetical NWMN_2311 SA2200 6.1 ABC transporter: amino acid (ATPase) NWMN_2312 SA2201 5.3 ABC transporter: amino acid (permease) NWMN_2313 SA2202 10.1 ABC transporter: amino acid (substrate binding) NWMN_2317 SA2206 sbi 5.0 Immunoglobulin G-binding protein NWMN_2470 SA2357 5.2 Hypothetical (regulatory protein) NWMN_2472...”
- Antimicrobial Activity and Mechanism of Action of Dracocephalum moldavica L. Extracts Against Clinical Isolates of Staphylococcus aureus
Yu, Frontiers in microbiology 2019 - “...DNA-binding Dps Iron-binding ferritin-like antioxidant Ferroxidase Dps1 5.81 0.000240 Q9EZ11 Dihydrodipicolinate reductase DapB 5.72 0.00 Q2FVL3 Cystine transport system permease TcyB 5.57 0.000234 Q2FW99 PTS system mannitol-specific transporter subunit IIB MtlA 4.88 0.00 Q2FWY4 DASS family divalent anion:sodium (Na+) symporter SdcS 4.68 0.000325 Q2G0Z5 FMN reductase...”
- Antibacterial Components and Modes of the Methanol-Phase Extract from Commelina communis Linn
Liu, Plants (Basel, Switzerland) 2023 - “...protein SAOUHSC_02699 2.762 Conserved hypothetical protein SAOUHSC_02697 2.799 Amino acid ABC transporter ATP-binding protein putative SAOUHSC_02698 2.883 Amino acid ABC transporter permease protein putative SAOUHSC_00176 2.892 Bacterial extracellular solute-binding protein putative SAOUHSC_00423 3.536 Conserved hypothetical protein SAOUHSC_02430 3.658 ABC transporter periplasmic binding protein putative SAOUHSC_01656 4.262...”
- Investigation of the Staphylococcus aureus GraSR regulon reveals novel links to virulence, stress response and cell wall signal transduction pathways
Falord, PloS one 2011 - “...to sulfonate/nitrate/taurine transport system permease 2.2 7.11E15 SAOUHSC_00367 HP similar to proton/sodium-glutamate symporter 2.2 1.55E15 SAOUHSC_02698 Putative amino acid ABC transporter permease 2.1 3.60E14 SAOUHSC_02773 Putative aminobenzoyl-glutamate transporter 2.1 2.86E13 SAOUHSC_00669* HP similar to Pit family transporter 1.9 2.44E10 SAOUHSC_02699 Putative amino acid ABC transporter ATP-binding...”
- Identification of Methicillin-Resistant Staphylococcus aureus (MRSA) Genetic Factors Involved in Human Endothelial Cells Damage, an Important Phenotype Correlated with Persistent Endovascular Infection
Xiao, Antibiotics (Basel, Switzerland) 2022 - “...4.80 SAUSA300_1968 hypothetical putative phage transcriptional regulator 25.23 9.97 SAUSA300_0642 hypothetical hypothetical protein 25.21 4.58 SAUSA300_2358 hypothetical ABC transporter permease 25.11 6.08 SAUSA300_1984 mroQ hypothetical protein 25.07 9.15 SAUSA300_1266 trpF N-(5-phosphoribosyl)anthranilate isomerase 25.05 7.12 SAUSA300_2251 hypothetical dehydrogenase family protein 25.00 3.65 SAUSA300_0706 hypothetical putative osmoprotectant ABC...”
- Human Urine Alters Methicillin-Resistant Staphylococcus aureus Virulence and Transcriptome
Paudel, Applied and environmental microbiology 2021 (secret) - Combined proteomic and transcriptomic analysis of the antimicrobial mechanism of tannic acid against Staphylococcus aureus
Wang, Frontiers in pharmacology 2023 - “...dehydrogenase complex 0.60 0.52 B4602_RS00640 - WP_000290396.1 Aldehyde dehydrogenase family protein 0.35 0.52 ABC transporter B4602_RS12705 hisM WP_000479576.1 Amino acid ABC transporter, permease protein 0.64 0.36 B4602_RS02155 gmpC WP_000825526.1 Dipeptide ABC transporter glycylmethionine-binding lipoprotein 0.40 0.29 B4602_RS11480 - WP_000989091.1 Branched-chain amino acids transporter, Periplasmic Binding Protein...”
- Mutations upstream of fabI in triclosan resistant Staphylococcus aureus strains are associated with elevated fabI gene expression
Grandgirard, BMC genomics 2015 - “...3.3 SAV2412 / SATW20_25420 / ABC transporter ATP-binding protein 10.1 8.5 16.3 25.5 SAV2413 / SATW20_25430 / ABC transporter permease 6.2 4.9 9.6 18.4 SAV2413 / SATW20_25430 / transport system membrane protein 3.9 3.4 4.7 8.0 SAV2414 / SATW20_25440 / extracellular solute-binding lipoprotein 2.4 2.2 3.1...”
SGO_1037 glutamine ABC transporter permease and substrate binding protein from Streptococcus gordonii str. Challis substr. CH1
31% identity, 45% 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...”
EF0761 amino acid ABC transporter, amino acid-binding/permease protein from Enterococcus faecalis V583
35% identity, 29% coverage
IUJ47_RS06845 amino acid ABC transporter substrate-binding protein/permease from Enterococcus faecalis
35% identity, 29% coverage
- Antibacterial Components and Modes of the Methanol-Phase Extract from Commelina communis Linn
Liu, Plants (Basel, Switzerland) 2023 - “...protein/permease IUJ47_RS07395 0.116 Amino acid ABC transporter ATP-binding protein IUJ47_RS10590 0.124 ABC transporter ATP-binding protein/permease IUJ47_RS06845 0.129 Amino acid ABC transporter substrate-binding protein/permease IUJ47_RS07470 0.136 Oligopeptide ABC transporter permease Opp1B IUJ47_RS02495 0.157 Peptide ABC transporter substrate-binding protein IUJ47_RS07475 0.198 Oligopeptide ABC transporter permease Opp1C IUJ47_RS01265 0.211...”
PA0313 probable permease of ABC transporter from Pseudomonas aeruginosa PAO1
33% identity, 94% coverage
- Genome-wide association study of signature genetic alterations among pseudomonas aeruginosa cystic fibrosis isolates
Hwang, PLoS pathogens 2021 - “...isolates included genes encoding a probable sulfatase, a probable TonB-dependent receptor (PA2332~PA2336), L-cystine transporter (YecS, PA0313), and a probable transcriptional regulator (PA5438). A promoter region of a heme/hemoglobin uptake outer membrane receptor (PhuR, PA4710) was also different between the CF and non-CF isolate groups. Our analysis...”
- “...presence of transferrin, and (ii) the insertion of three amino acids in a cystine transporter (PA0313), which results in decreased pyochelin production. Furthermore, single nucleotide replacement in a promoter was identified and shown to upregulate the cellular process for iron acquisition. Our bioinformatics analyses, linked with...”
- A Robust Genome-Wide Association Study Uncovers Signature Genetic Alterations amongPseudomonas aeruginosaCystic Fibrosis Isolates
Hwang, 2020 - Genetic adaptation of Pseudomonas aeruginosa to the airways of cystic fibrosis patients is catalyzed by hypermutation
Mena, Journal of bacteriology 2008 - “...sequenced genes includes mexZ (PA2020), lasR (PA1430), PA0313, mexA (PA0425), accC (PA4848), vfr (PA0652), mexS (PA2491), exsA (PA1713), PA0506, wspF (PA3703),...”
- “...in antibiotic resistance genes mexZ (PA2020) lasR (PA1430) PA0313 mexA (PA0425) accC (PA4848) vfr (PA0652) mexS (PA2491) exsA (PA1713) PA0506 wspF (PA3703) rpoN...”
- Genome-scale metabolic network analysis of the opportunistic pathogen Pseudomonas aeruginosa PAO1
Oberhardt, Journal of bacteriology 2008 - “...transporter L-Aspartate oxidase PA0215, PA0216 PA0313, PA0314 Conserved hypothetical protein Probable oxidase Probable Orn/Arg/Lys decarboxylase Hypothetical...”
- High-throughput phenotypic characterization of Pseudomonas aeruginosa membrane transport genes
Johnson, PLoS genetics 2008 - “...4-amino butyrate APC family transporter ( gabP ) 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...”
- Genetic adaptation by Pseudomonas aeruginosa to the airways of cystic fibrosis patients
Smith, Proceedings of the National Academy of Sciences of the United States of America 2006 - “...Gene name Gene annotation no. mexZ PA2020 lasR PA1430 PA0313 mexA PA0425 accC *vfr mexS exsA PA4848 PA0652 PA2491 PA1713 *wspF PA0506 PA3703 *rpoN *fleQ PA4462...”
SMa0492 putative ABC transporter, permease from Sinorhizobium meliloti 1021
34% identity, 91% coverage
SSA_1359 Arginine/histidine ABC transporter, permease component, putative from Streptococcus sanguinis SK36
31% identity, 29% coverage
BMD20_14360 amino acid ABC transporter permease from Burkholderia multivorans
34% identity, 95% coverage
NGO0373 putative ABC transporter, permease protein, amino acid from Neisseria gonorrhoeae FA 1090
31% identity, 92% coverage
- A Novel Platform Using RNA Signatures To Accelerate Antimicrobial Susceptibility Testing in Neisseria gonorrhoeae
Hashemi, Journal of clinical microbiology 2020 (secret) - MpeR regulates the mtr efflux locus in Neisseria gonorrhoeae and modulates antimicrobial resistance by an iron-responsive mechanism
Mercante, Antimicrobial agents and chemotherapy 2012 - “...change Functional classification MpeR repressed NGO0018 NGO0205 NGO0373 NGO0393 NGO0678 NGO0679 NGO0754 NGO0795 NGO0863 NGO0891 NGO0916 NGO1046 NGO1273 NGO1368...”
- “...NGO1770 NGO1780 NGO1809 NGO2013 NGO2014 NGO2094 NGO0018 lolA NGO0373 NGO0393 NGO0678 leuC mobA bfrB NGO0863 NGO0891 sucB clpB NGO1273 mtrF nqrD nqrF grpE...”
- Deep sequencing-based analysis of the anaerobic stimulon in Neisseria gonorrhoeae
Isabella, BMC genomics 2011 - “...transporter, periplasmic binding protein Fur, Lrp oxiA NGO0372 -6.7 -20.0 Bacterial extracellular solute-binding protein FarR NGO0373 -3.7 -11.1 ABC-type arginine transport system, permease component FarR glnQ NGO0374 -2.9 -11.1 ABC-type amino acid transporter, ATP-binding protein FarR, FNR citT NGO0377 -5.6 -9.1 Di- and tri-carboxylate transporters (inorganic...”
- “...AmtB nspA NGO0233 -3.4 2.6 Outer membrane protein greB NGO0262 -4.5 -1.8 Transcription elongation factor NGO0373 -7.4 -2.5 Amino acid ABC transporter, permease protein NGO0377 -7.4 -150.4 Probable transmembrane transport protein cspA NGO0410 -3.6 3.2 Cold shock protein A NGO0492 7.7 1.8 Putative phage associated protein...”
- Phasevarions mediate random switching of gene expression in pathogenic Neisseria
Srikhanta, PLoS pathogens 2009 - “...Cysteine synthase 2.23 4.20 NGO0372 Amino acid ABC transporter, periplasmic binding protein 2.27 5.301.18 3.28 NGO0373 Amino acid ABC transporter, permease protein 3.01 7.240.588 5.47 NGO0374 Amino acid ABC transporter, ATP-binding protein 2.81 3.830.616 7.14 NGO0656 oxalate/formate antiporter 2.39 3.040.708 6.04 NGO0655 Exodeoxyribonuclease VII, large subunit...”
Ac3H11_2554 ABC transporter for L-Histidine, permease component 1 from Acidovorax sp. GW101-3H11
33% identity, 94% coverage
- mutant phenotype: Specific phenotypes on L-Histidine. In a gene cluster that also includes hutD and imidazolonepropionase. Some subunits are annotated as transporting glutamine.
BCAL1609 binding-protein-dependent transport system inner membrane protein from Burkholderia cenocepacia J2315
34% identity, 95% coverage
DVU0967 amino acid ABC transporter, permease protein, His/Glu/Gln/Arg/opine family from Desulfovibrio vulgaris Hildenborough
Q72DG2 Amino acid ABC transporter, permease protein, His/Glu/Gln/Arg/opine family from Nitratidesulfovibrio vulgaris (strain ATCC 29579 / DSM 644 / CCUG 34227 / NCIMB 8303 / VKM B-1760 / Hildenborough)
30% identity, 63% coverage
- Energetic consequences of nitrite stress in Desulfovibrio vulgaris Hildenborough, inferred from global transcriptional analysis
He, Applied and environmental microbiology 2006 - “...DVU0107 DVU0388 DVU0624 DVU0625 DVU0751 DVU0752 DVU0966 DVU0967 DVU0968 DVU1026 DVU1237 DVU1238 DVU1766 DVU2113 DVU2242 DVU2543 DVU3392 Expression ratio...”
- Synergy of Sodium Nitroprusside and Nitrate in Inhibiting the Activity of Sulfate Reducing Bacteria in Oil-Containing Bioreactors.
Fida, Frontiers in microbiology 2018 - “...proteins (Q72EB0 and Q727W6), an efflux transporter (Q72G03), outer membrane-associated proteins (Q72CM3, Q72D62, Q72C14, Q726K3, Q72DG2, and Q72G03), and ferrous iron transport proteins (Q728N1 and Q728N2). The increased expression of heat shock proteins is in agreement with previous findings indicating increased expression of these genes after...”
SAR1949 putative extracellular glutamine-binding protein from Staphylococcus aureus subsp. aureus MRSA252
DA471_RS01680 ABC transporter permease subunit from Staphylococcus aureus
29% identity, 44% coverage
SA1675 hypothetical protein from Staphylococcus aureus subsp. aureus N315
SAV1858 similar to glutamine-binding periplasmic protein from Staphylococcus aureus subsp. aureus Mu50
29% identity, 49% coverage
Lreu_0294 amino acid ABC transporter permease from Limosilactobacillus reuteri subsp. reuteri
Lreu_0294 polar amino acid ABC transporter, inner membrane subunit from Lactobacillus reuteri DSM 20016
32% identity, 91% coverage
IUJ47_RS04720 ABC transporter permease subunit from Enterococcus faecalis
36% identity, 41% coverage
- Antibacterial Components and Modes of the Methanol-Phase Extract from Commelina communis Linn
Liu, Plants (Basel, Switzerland) 2023 - “...0.253 Phosphate ABC transporter permease subunit PstC IUJ47_RS11400 0.256 Phosphate ABC transporter ATP-binding protein PstB IUJ47_RS04720 0.265 ABC transporter permease subunit IUJ47_RS12860 0.279 Energy-coupling factor transporter transmembrane protein EcfT IUJ47_RS09165 0.282 Carbohydrate ABC transporter permease IUJ47_RS11395 0.285 Phosphate ABC transporter ATP-binding protein PstB IUJ47_RS04685 0.288 Energy-coupling...”
EF0247 amino acid ABC transporter, amino acid-binding/permease protein from Enterococcus faecalis V583
36% identity, 41% coverage
BC0873 Cystine transport system permease protein from Bacillus cereus ATCC 14579
31% identity, 94% coverage
N134_RS01525 amino acid ABC transporter permease from Limosilactobacillus reuteri TD1
32% identity, 91% coverage
- Investigating Differential Expressed Genes of Limosilactobacillus reuteri LR08 Regulated by Soybean Protein and Peptides
Zhu, Foods (Basel, Switzerland) 2022 - “...showed marked expression changes in response to dpep treatment. TcyA ( N134_RS01535 ), tcyB ( N134_RS01525 ), and tcyC ( N134_RS01530 ) encoding transporter substrate-binding domain-containing protein [ 35 ], amino acid ABC transporter permease, and amino acid ABC transporter ATP-binding protein, which jointly participated in...”
- “...accounting for 60.41%, among which the expression patterns of metC ( N134_RS01520 ), tycB ( N134_RS01525 ), tycC ( N134_RS01530 ), and opuC ( N134_RS00920 ) in the 3 groups were all in accordance with those of in RNA-seq. These results were deemed to be relatively...”
DR2155 amino acid ABC transporter, permease protein from Deinococcus radiodurans R1
30% identity, 76% coverage
NWMN_1750 extracellular glutamine-binding protein from Staphylococcus aureus subsp. aureus str. Newman
SAOUHSC_01991 ABC transporter, permease protein, putative from Staphylococcus aureus subsp. aureus NCTC 8325
SAUSA300_1808 amino acid ABC transporter, permease/substrate-binding protein from Staphylococcus aureus subsp. aureus USA300_FPR3757
SACOL1916 amino acid ABC transporter, permease/substrate-binding protein from Staphylococcus aureus subsp. aureus COL
ILP77_RS08845 ABC transporter permease subunit from Staphylococcus aureus
29% identity, 44% coverage
- Molecular Mechanisms of Staphylococcus and Pseudomonas Interactions in Cystic Fibrosis
Biswas, Frontiers in cellular and infection microbiology 2021 - “...gltB and gltD that convert glutamine to glutamate. Moreover, increased expression of glutamine binding protein (NWMN_1750) in S. aureus and ammonium transporter (PA14_24780) in P. aeruginosa indicate that both bacteria try to acquire nitrogen from extracellular sources. These modifications suggest that co-existence induces competition for nutrient...”
- Transcriptional profiling of Pseudomonas aeruginosa and Staphylococcus aureus during in vitro co-culture
Tognon, BMC genomics 2019 - “...Moreover, both bacteria seemed to acquire extracellular N-sources as reflected by the increased expression of NWMN_1750 in S. aureus , encoding a glutamine binding protein, and PA14_24780 in P. aeruginosa , an ammonium transporter. Taken together, these findings indicate that co-culture rapidly induces conditions of nitrogen...”
- Sulfide Homeostasis and Nitroxyl Intersect via Formation of Reactive Sulfur Species in Staphylococcus aureus
Peng, mSphere 2017 - “...5.0 Hypothetical NWMN_1749 SA1674 tcyC 1.8 e 7.1 ABC transporter: cystine (ATPase) e + Down NWMN_1750 SA1675 tycB 1.6 e 6.7 ABC transporter: cystine (permease) e + Down NWMN_1751 SA1676 tycA 1.2 e 4.8 ABC transporter: cystine (cystine binding) e + NWMN_1877 SA1755 chp 32.7 Chemotaxis-inhibiting...”
- CodY in Staphylococcus aureus: a regulatory link between metabolism and virulence gene expression
Pohl, Journal of bacteriology 2009 - “...NWMN_1311 NWMN_1348 NWMN_1616 NWMN_1617 NWMN_1749 NWMN_1750 NWMN_1960 NWMN_1961 NWMN_1962 NWMN_1963 NWMN_1964 NWMN_1965 NWMN_1966 NWMN_2347 NWMN_2500 NWMN_2501...”
- Spontaneous formation of MXene-oxidized sono/chemo-dynamic sonosensitizer/nanocatalyst for antibacteria and bone-tissue regeneration
Yu, Journal of nanobiotechnology 2023 - “...which were related to carbohydrate metabolism. In addition, the expression of genes (SAOUHSC_02137, SAOUHSC_01990 and SAOUHSC_01991) associated with cell membrane transport proteins was decreased. Importantly, the expression of genes (rpsS, inf-3, mutL, rplC and rpmG) associated with protein synthesis was also reduced. This may be related...”
- Protectome analysis: a new selective bioinformatics tool for bacterial vaccine candidate discovery
Altindis, Molecular & cellular proteomics : MCP 2015 - “...S. aureus: SAOUHSC_00544*, SAOUHSC_00545* S. aureus: SAOUHSC_01991, SAOUHSC_02699 GBS: SAG0136, SAG0290, SAG0717, SAG0949, SAG1431, SAG1610, SAG1642, SAG1466 S....”
- The Staphylococcus aureus KdpDE two-component system couples extracellular K+ sensing and Agr signaling to infection programming
Xue, Infection and immunity 2011 - “...SAOUHSC_02523 SAOUHSC_02858 SAOUHSC_01296 SAOUHSC_01729 SAOUHSC_01991 SAOUHSC_00202 SAOUHSC_02850 SAOUHSC_03047 SAOUHSC_01032 SAOUHSC_01072 SAOUHSC_00704...”
- Identification of the main glutamine and glutamate transporters in Staphylococcus aureus and their impact on c-di-AMP production
Zeden, Molecular microbiology 2020 - “...glutamate transport in other bacteria (SchuurmanWolters & Poolman, 2005 ). S. aureus contains a glnPQ (SAUSA300_1808 SAUSA300_1807) operon with glnP coding for a substratebinding domainpermease fusion protein and glnQ coding for the cytoplasmic nucleotidebinding ATPase domain. The results from a previous study suggested that this transporter...”
- Differential gene expression in Staphylococcus aureus exposed to Orange II and Sudan III azo dyes
Pan, Journal of industrial microbiology & biotechnology 2015 - “...TGCATTACCTGATTCTGAACCTT SAUSA300_0846 (argG) SAUSA300_1808 SAUSA300_0914 GTGGCGCAGCATAAGGAT GGGCATGGAGTCGTGAAG GTGGCGCAGCATAAGGAT ACTGCGATGTATGCACAAGC...”
- “...2.06 SAUSA300_2385 SAUSA300_1231 SAUSA300_0864 SAUSA300_2538 SAUSA300_1808 SAUSA300_1916 SAUSA300_0914 SAUSA300_2006 ilvD EG Amino acid permease family protein...”
- Daptomycin resistance mechanisms in clinically derived Staphylococcus aureus strains assessed by a combined transcriptomics and proteomics approach
Fischer, The Journal of antimicrobial chemotherapy 2011 - “...arcA arcB arcB1 arcB2 arcD arg argF argH SACOL0408 SACOL1916 SAV2440 lacA lacB lacD lacE lacF lacG lldP2 manA SA0208 scrA tagG treP treC SAV0734 SAV2417 MW0149...”
- Tricarboxylic acid cycle-dependent attenuation of Staphylococcus aureus in vivo virulence by selective inhibition of amino acid transport
Zhu, Infection and immunity 2009 - “...no. NC_002951). A 1.4-kb PCR product encompassing SACOL1916 (putative glutamine permease gene, glnP) was amplified using primers COL1916-f and COL1916-r and...”
- “...portion of the putative Gln permease gene (glnP, orf SACOL1916) was replaced in S. aureus strain UAMS-1 with an ermB cassette and TCA cycle activity was...”
- A new oxidative sensing and regulation pathway mediated by the MgrA homologue SarZ in Staphylococcus aureus
Chen, Molecular microbiology 2009 - “...3.8 Conserved hypothetical protein SACOL1849 2.3 - Conserved hypothetical protein SACOL1915 4.1 Glutamate ABC transporter SACOL1916 3.8 Amino acid ABC transporter SACOL2461 3.7 + Conserved hypothetical protein SACOL2579 3.6 Phytone dehydrogenase SACOL2585 4.0 -2.0 pfoS/R like regulatory protein SACOL2619 3.1 -2.4 Amino acid permiase SACOL2704 3.0...”
- Antibacterial and antibiofilm activities of protocatechualdehyde and its synergy with ampicillin against methicillin-resistant Staphylococcus aureus
Wang, Frontiers in microbiology 2024 - “...resistance to antibiotics ( Smith et al., 2019 ). Under the stimulation of PA, artQ (ILP77_RS08845) was significantly upregulated. Therefore, it is speculated that the upregulation of artQ would promote the intake of antibiotics, resulting in decrease of drug resistance. 3.4.5.5 Genes associated with genetic information...”
GBAA_0856 amino acid ABC transporter permease from Bacillus anthracis str. 'Ames Ancestor'
30% identity, 94% coverage
GSU3405 amino acid ABC transporter, permease protein from Geobacter sulfurreducens PCA
30% identity, 81% coverage
PP0226 cysteine ABC transporter, permease protein, putative from Pseudomonas putida KT2440
32% identity, 96% coverage
NMA0999 putative amino acid permease integral membrane protein from Neisseria meningitidis Z2491
34% identity, 88% coverage
NMB0788 amino acid ABC transporter, permease protein from Neisseria meningitidis MC58
34% identity, 91% coverage
- The Meningococcal Cysteine Transport System Plays a Crucial Role in Neisseria meningitidis Survival in Human Brain Microvascular Endothelial Cells
Takahashi, mBio 2018 - “...MC58 ( 41 ). In the present study, NMB0787 (amino acid ABC transporter substrate-binding protein), NMB0788 (amino acid ABC transporter permease), and NMB0789 (amino acid ABC transporter ATP-binding protein) were renamed cysteine-binding protein ( cbp ), cysteine transporter permease ( ctp ), and cysteine ATP-binding protein...”
- Metabolism and virulence in Neisseria meningitidis
Schoen, Frontiers in cellular and infection microbiology 2014 - “...( proC, putA ), and of a number of genes for amino acid transporters (NMB0787, NMB0788, NMB2031). Other major groups of metabolic genes essential for growth in serum were those involved in the synthesis of folic acid, pantothenate and pyridine, purines as well as genes required...”
- Interrogation of global mutagenesis data with a genome scale model of Neisseria meningitidis to assess gene fitness in vitro and in sera
Mendum, Genome biology 2011 - “...acquisition ( exbBD, tonB, fetC, fbpB, lbpA ), a number of amino acid transporters (NMB0787, NMB0788, NMB2031), and lactate permease (NMB0543), a gene known to be required for fitness when N. meningitidis is grown on nasopharyngeal explants [ 2 ]. Several genes of central carbon metabolism...”
- Role of Hfq in iron-dependent and -independent gene regulation in Neisseria meningitidis
Mellin, Microbiology (Reading, England) 2010 - “...protein secretion 1.97 2.55 1.57 1.39 NMB0787 Amino acid ABC transporter 2.16 3.01 1.22 1.17 NMB0788 Amino acid ABC transporter 1.90 2.64 1.30 1.10 NMB0881 cysT Sulfate ABC transporter 7.29 4.69 1.93 3.05 NMB1017 sbp Sulfate ABC transporter 8.12 6.30 2.59 1.27 NMB1315 uraA Uracil permease...”
- Transcriptome analysis of Neisseria meningitidis during infection
Dietrich, Journal of bacteriology 2003 - “...12, 2017 by University of California, Berkeley NMB0788 NMB0880 NMB0881 NMB1017 NMB1728 NMB1888 NMB1998 Transcription NMB0126 NMB0132 NMB0617 Metabolism NMB0678...”
- “...NMB0177, NMB0328, NMB0517, NMB0617, NMB0700, NMB0787, NMB0788, NMB0880, NMB0881, NMB0977, NMB0994, NMB0995, NMB1017, NMB1377, NMB1845, NMB1857, and NMB1940....”
- Analysis of the heat shock response of Neisseria meningitidis with cDNA- and oligonucleotide-based DNA microarrays
Guckenberger, Journal of bacteriology 2002 - “...NMB0187 NMB0535 NMB0565 NMB0567 NMB0568 NMB0623 NMB0787 NMB0788 NMB0838 NMB0960 NMB1343 NMB1669 NMB1808 NMB1809 NMB1810 NMB1811 NMB1812 NMB1933 NMB1936 NMB1937...”
BMEI0112 ASPARAGINE TRANSPORT SYSTEM PERMEASE PROTEIN from Brucella melitensis 16M
BAB1_1956 Binding-protein-dependent transport systems inner membrane component from Brucella melitensis biovar Abortus 2308
BR1955 amino acid ABC transporter, permease protein from Brucella suis 1330
BCAN_A2000 amino acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family from Brucella canis ATCC 23365
BAW_11873 amino acid ABC transporter permease from Brucella abortus
31% identity, 87% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...amino acid import ABC BMEI0111 BruAb11935 BR1956 BOV_1885 BCAN_A2001 PAO Polar amino acid import IM BMEI0112 BruAb11931 BR1955 BOV_1882 BCAN_A2000 PAO Polar amino acid import IM BMEI0113 BruAb11930 BR1954 BOV_1081 BCAN_A1999 PAO Polar amino acid import BP BMEI0114 BruAb11929 BR1953 BOV_1880 BCAN_A1998 PAO Polar amino acid...”
- The regulon of Brucella abortus two-component system BvrR/BvrS reveals the coordination of metabolic pathways required for intracellular life
Rivas-Solano, PloS one 2022 - “...[ 61 ] BAW_11935 BAB1_2019 zntA Zn exporter, important for virulence [ 61 ] BAW_11873 BAB1_1956 BAW_11873 ABC transporter permease binding-protein dependent transport system inner membrane protein BAW_11874 BAB1_1957 BAW_11874 Arginine ABC transporter ATP-binding protein Genes with 4 binding sites BAW_12005 BAB1_2090 -BAB1_2091 pckA Pseudogene. Premature...”
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...import ABC BMEI0111 BruAb11935 BR1956 BOV_1885 BCAN_A2001 PAO Polar amino acid import IM BMEI0112 BruAb11931 BR1955 BOV_1882 BCAN_A2000 PAO Polar amino acid import IM BMEI0113 BruAb11930 BR1954 BOV_1081 BCAN_A1999 PAO Polar amino acid import BP BMEI0114 BruAb11929 BR1953 BOV_1880 BCAN_A1998 PAO Polar amino acid import BP...”
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...BMEI0111 BruAb11935 BR1956 BOV_1885 BCAN_A2001 PAO Polar amino acid import IM BMEI0112 BruAb11931 BR1955 BOV_1882 BCAN_A2000 PAO Polar amino acid import IM BMEI0113 BruAb11930 BR1954 BOV_1081 BCAN_A1999 PAO Polar amino acid import BP BMEI0114 BruAb11929 BR1953 BOV_1880 BCAN_A1998 PAO Polar amino acid import BP BOV_1879 90...”
- The regulon of Brucella abortus two-component system BvrR/BvrS reveals the coordination of metabolic pathways required for intracellular life
Rivas-Solano, PloS one 2022 - “...virulence [ 61 ] BAW_11935 BAB1_2019 zntA Zn exporter, important for virulence [ 61 ] BAW_11873 BAB1_1956 BAW_11873 ABC transporter permease binding-protein dependent transport system inner membrane protein BAW_11874 BAB1_1957 BAW_11874 Arginine ABC transporter ATP-binding protein Genes with 4 binding sites BAW_12005 BAB1_2090 -BAB1_2091 pckA Pseudogene....”
TCYB_BACSU / P42200 L-cystine transport system permease protein TcyB from Bacillus subtilis (strain 168) (see paper)
TC 3.A.1.3.14 / P42200 TcyB (YckJ), component of Uptake system for L-cystine from Bacillus subtilis (see 4 papers)
29% identity, 93% coverage
- function: Part of the ABC transporter complex TcyABC involved in L- cystine import. Probably responsible for the translocation of the substrate across the membrane (Probable).
subunit: The complex is composed of two ATP-binding proteins (TcyC), two transmembrane proteins (TcyB) and a solute-binding protein (TcyA). - substrates: Cystine
- Identification of nutrient partitioning genes participating in rice grain filling by singular value decomposition (SVD) of genome expression data
Anderson, BMC genomics 2003 - “...Arabidopsis thaliana OS023388_r_at YDEZ_ECOLI P77651 ESCHERICHIA COLI. HYPOTHETICAL ABC TRANSPORTER PERMEASE PROTEIN YDEZ. OS014177_at YCKJ_BACSU P42200 BACILLUS SUBTILIS. PROBABLE AMINO-ACID ABC TRANSPORTER PERMEASE PROTEIN. OS022558_i_at R104_SACPA Q92378 SACCHAROMYCES PARADOXUS (YEAST). MEIOTIC RECOMBINATION PROTEIN REC104. OS012669.1_at gi|3044212| acyl-CoA oxidase [Arabidopsis thaliana] OS013723_at GLGC_BACCL P30522 BACILLUS CALDOLYTICUS. GLUCOSE-1-PHOSPHATE...”
AO353_21715 ABC transporter for D-glucosamine, permease component 1 from Pseudomonas fluorescens FW300-N2E3
35% identity, 87% coverage
- mutant phenotype: # Specifically important in nitrogen source D-Glucosamine Hydrochloride; carbon source D-Glucosamine Hydrochloride
A9497_00720, AKL23_RS04215 amino acid ABC transporter permease from Streptococcus thermophilus
33% identity, 93% coverage
- Technological and Genomic Analysis of Roles of the Cell-Envelope Protease PrtS in Yoghurt Starter Development
Tian, International journal of molecular sciences 2018 - “...OppF; ATP-binding 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...”
- “...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 Transporter A9497_02760...”
BURMUCGD2M_3194 glutamate/aspartate ABC transporter, permease protein GltJ from Burkholderia multivorans CGD2M
31% identity, 87% coverage
AL01_05630 ABC transporter substrate-binding protein/permease from Bombella intestini
36% identity, 32% coverage
LBA0112 putative glutamine ABC transporter from Lactobacillus acidophilus NCFM
30% identity, 40% coverage
spr1120 ABC transporter membrane spanning permease - glutamine transport from Streptococcus pneumoniae R6
32% identity, 29% 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...”
OEOE_RS03595 ABC transporter substrate-binding protein/permease from Oenococcus oeni PSU-1
29% identity, 42% coverage
- Transcriptomic and Proteomic Analysis of Oenococcus oeni Adaptation to Wine Stress Conditions
Margalef-Català, Frontiers in microbiology 2016 - “.... An example of each profile is shown. Profile I: OEOE_RS07930 (UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase); Profile II: OEOE_RS03595 (amino acid ABC transporter substrate-binding protein); Profile III: OEOE_RS05245 (oligoendopeptidase F); Profile IV: OEOE_RS07040 (glycerol-3-phosphate ABC transporter permease); Profile V: OEOE_RS03155 (F0F1 ATP synthase subunit A); Profile VI: OEOE_RS01045 (PTS...”
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
32% identity, 29% 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...”
SERP_RS06915 ABC transporter substrate-binding protein/permease from Staphylococcus epidermidis RP62A
SERP1395 amino acid ABC transporter, permease/amino acid-binding protein, putative from Staphylococcus epidermidis RP62A
29% identity, 45% coverage
- Mutation of gdpS gene induces a viable but non-culturable state in Staphylococcus epidermidis and changes in the global transcriptional profile
Zhu, BMC microbiology 2022 - “...( gdpS /WT) Biological functions/pathways SERP_RS02180 gdpS GGDEF domain-containing protein -10.65 SERP_RS05895 hypothetical protein 1.01 SERP_RS06915 glutamate ABC transporter permease 1.04 SERP_RS08330 ilvC ketol-acid reductoisomerase 1.34 Valine, leucine and isoleucine biosynthesis SERP_RS08335 leuA 2-isopropylmalate synthase 1.03 SERP_RS08340 leuB 3-isopropylmalate dehydrogenase 1.1 SERP_RS09425 ssaA secretory antigen precursor...”
- Gram-positive three-component antimicrobial peptide-sensing system
Li, Proceedings of the National Academy of Sciences of the United States of America 2007 - “...SERP0573 SERP0712 SERP1470 SERP1772 SERP2170 SERP2442 SERP0971 SERP1394 SERP1395 SERP1951 SERP1952 2.05* 2.07* 2.05* 2.15* 2.07* 2.3* 0.33 0.41 Displays is a...”
- “...were slightly down-regulated (genes SERP1394, SERP1395, SERP1951, SERP1952). Thus, the 9470 www.pnas.orgcgidoi10.1073pnas.0702159104 Fig. 1. Gene regulatory...”
SE1541 glutamine-binding periplasmic protein from Staphylococcus epidermidis ATCC 12228
29% identity, 45% coverage
SM12261_RS05465 ABC transporter substrate-binding protein/permease from Streptococcus mitis NCTC 12261
32% identity, 29% coverage
Dgeo_1987 Amino acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine from Deinococcus geothermalis DSM 11300
36% identity, 75% coverage
BAU10_19275 amino acid ABC transporter permease from Vibrio alginolyticus
32% identity, 77% coverage
AO356_00475 ABC transporter for D-Glucosamine, permease component 2 from Pseudomonas fluorescens FW300-N2C3
34% identity, 87% coverage
- mutant phenotype: Specific phenotypes on D-Glucosamine Hydrochloride. Detrimental on D-serine as N source
SAK_RS07535 ABC transporter substrate-binding protein/permease from Streptococcus agalactiae A909
32% identity, 29% 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...”
Pf6N2E2_2052 ABC transporter for D-Glucosamine Hydrochloride, permease component 2 from Pseudomonas fluorescens FW300-N2E2
34% identity, 87% coverage
- mutant phenotype: Specific phenotypes on D-Glucosamine Hydrochloride; D-Glucosamine Hydrochloride. ko:K02029 : polar amino acid transport system permease protein
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
31% identity, 29% 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...”
LBAT_1391 amino acid ABC transporter permease from Lactobacillus acetotolerans
29% identity, 93% coverage
RSp0480 amino acid ABC transporter permease from Ralstonia pseudosolanacearum GMI1000
31% identity, 82% coverage
- Transcriptomes of Ralstonia solanacearum during Root Colonization of Solanum commersonii
Puigvert, Frontiers in plant science 2017 - “...RSUY_41890 2.99 ybtP ABC transporter ATP-binding protein RSUY_RS15985 RSUY_32660 RSp0078 3.05 MFS transporter RSUY_RS18200 RSUY_37310 RSp0480 3.17 amino acid ABC transporter permease RSUY_RS19050 RSUY_39080 RSp0707 3.19 ABC transporter ATP-binding protein RSUY_RS21055 RSUY_43260 RSp1114 3.35 RND transporter RSUY_RS01890 RSUY_03920 RSc3069 3.50 MFS transporter RSUY_RS22255 RSUY_45730 RSp1595 3.73...”
OA04_29540 amino acid ABC transporter permease from Pectobacterium versatile
30% identity, 97% coverage
CFF8240_RS03850 amino acid ABC transporter permease from Campylobacter fetus subsp. fetus 82-40
31% identity, 90% coverage
- Biochemical and molecular characterization of Campylobacter fetus isolates from bulls subjected to bovine genital campylobacteriosis diagnosis in Spain
Pena-Fernández, BMC veterinary research 2024 - “...extracting target regions from the reference strain Cff 8240 (specifically ATP-Bp locus tags CFF8240_RS03845, yckJ CFF8240_RS03850, yckK CFF8240_RS03855, and cysK CFF8240_0922). When the sequence identity of the genes encoding the L-Cyst transporter or cysK was less than 100%, the sequences were aligned to the Cff 8240...”
- L-cysteine transporter-PCR to detect hydrogen sulfide-producing Campylobacter fetus
Farace, PeerJ 2019 - “...of the transporter: the ATP-binding protein, the permease, and the substrate-binding protein (locus tags CFF8240_RS03845, CFF8240_RS03850 and CFF8240_RS03855 in C. fetus 82-40 genome, respectively). This L -Cys importer could be part of the Class 3 ABC-transporters ( Licht & Schneider, 2011 ) and in Cfv the...”
- “...PCR-products are shown. The gray arrow represents the permease protein YckJ coding gene (locus tag CFF8240_RS03850 in Cff 82-40 genome) which is deleted in Cfv strains. The light gray arrow represents the extracellular-binding protein YckK coding gene (locus tag CFF8240_RS03855), which is partially deleted in Cfv....”
CFF8240_0780 probable amino-acid ABC transporter permease protein YckJ from Campylobacter fetus subsp. fetus 82-40
32% identity, 85% coverage
SAG0136 amino acid ABC transporter, amino acid-binding protein/permease protein from Streptococcus agalactiae 2603V/R
28% identity, 43% coverage
- Protectome analysis: a new selective bioinformatics tool for bacterial vaccine candidate discovery
Altindis, Molecular & cellular proteomics : MCP 2015 - “...SAOUHSC_00545* S. aureus: SAOUHSC_01991, SAOUHSC_02699 GBS: SAG0136, SAG0290, SAG0717, SAG0949, SAG1431, SAG1610, SAG1642, SAG1466 S. aureus: SAOUHSC_00634*,...”
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
31% 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...”
RSUY_37310, RSUY_RS18200 amino acid ABC transporter permease from Ralstonia solanacearum
31% identity, 82% coverage
- Transcriptomes of Ralstonia solanacearum during Root Colonization of Solanum commersonii
Puigvert, Frontiers in plant science 2017 - “...RSUY_RS20395 RSUY_41890 2.99 ybtP ABC transporter ATP-binding protein RSUY_RS15985 RSUY_32660 RSp0078 3.05 MFS transporter RSUY_RS18200 RSUY_37310 RSp0480 3.17 amino acid ABC transporter permease RSUY_RS19050 RSUY_39080 RSp0707 3.19 ABC transporter ATP-binding protein RSUY_RS21055 RSUY_43260 RSp1114 3.35 RND transporter RSUY_RS01890 RSUY_03920 RSc3069 3.50 MFS transporter RSUY_RS22255 RSUY_45730 RSp1595...”
- “...transporter RSUY_RS20395 RSUY_41890 2.99 ybtP ABC transporter ATP-binding protein RSUY_RS15985 RSUY_32660 RSp0078 3.05 MFS transporter RSUY_RS18200 RSUY_37310 RSp0480 3.17 amino acid ABC transporter permease RSUY_RS19050 RSUY_39080 RSp0707 3.19 ABC transporter ATP-binding protein RSUY_RS21055 RSUY_43260 RSp1114 3.35 RND transporter RSUY_RS01890 RSUY_03920 RSc3069 3.50 MFS transporter RSUY_RS22255 RSUY_45730...”
VC0009 amino acid ABC transproter, permease protein from Vibrio cholerae O1 biovar eltor str. N16961
32% identity, 90% coverage
- Maintenance of chromosome structure in Pseudomonas aeruginosa
Rybenkov, FEMS microbiology letters 2014 - “...cassettes. rH , rpmH; rA , rnpA; yD , yidD; v8 , VC0008; v9 , VC0009; v10 , VC0010; p66 , PA5566; yyB , yyaB; yA , yaaA; yB , yaaB . Fig. 2 A working model of bacterial chromosome. Chromosome structure is stabilized by various...”
BB0689 putative permease component of ABC transporter from Bordetella bronchiseptica RB50
33% identity, 89% coverage
- The surface lipoproteins of gram-negative bacteria: Protectors and foragers in harsh environments
Cole, The Journal of biological chemistry 2021 - “...SusD Nutrient acquisition 3CKC ( 72 ) Borrelia burgdorferi BB0365 Unknown 6RIG ( 123 ) BB0689 Unknown 4D53 ( 124 )s BBA15 (OspA) Cell survival in ticks 2G8C ( 125 ) BBA16 (OspB) Cell survival in ticks 1RJL ( 126 ) BBA24 (DbpA) Heparin binding 4ONR...”
- “...Jaudzems K. Petrovskis I. Akopjana I. Kazaks A. Tars K. Structural and functional analysis of BB0689 from Borrelia burgdorferi, a member of the bacterial CAP superfamily J.Struct. Biol. 192 2015 320 330 26407658 125 Makabe K. Tereshko V. Gawlak G. Yan S. Koide S. Atomic-resolution crystal...”
DET0418 amino acid ABC transporter, permease protein, His/Glu/Gln/Arg/opine family from Dehalococcoides ethenogenes 195
31% identity, 76% coverage
LSA_RS00920 amino acid ABC transporter permease from Fructilactobacillus sanfranciscensis TMW 1.1304
32% identity, 92% coverage
SOR_1115 amino acid ABC transporter permease from Streptococcus oralis Uo5
33% identity, 93% coverage
- Potential of Prebiotic D-Tagatose for Prevention of Oral Disease
Mayumi, Frontiers in cellular and infection microbiology 2021 - “...the ATP binding cassette (ABC) transporter. Additionally, a polar amino acid ABC transporter permease gene (SOR_1115) was up-regulated ( Figure 10 ), while sugar ABC transporter genes (SOR_0121, 1899) were down-regulated. Alteration of Metabolomic Profile Metabolomic analysis was also performed to observe the effects of changes...”
- “...Chahed et al., 2021 ). In 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...”
SSUBM407_0896 glutamine ABC transporter, glutamine-binding protein/permease protein from Streptococcus suis BM407
31% 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...”
HISM_SALTY / P0A2I7 Histidine/lysine/arginine/ornithine transport system permease protein HisM from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 5 papers)
TC 3.A.1.3.1 / P0A2I7 Histidine transport system permease protein HisM aka STM2352, component of Histidine/arginine/lysine/ornithine porter (Heuveling et al. 2014). In contrast to some homologous homodimeric systems, the heterodimeric histidine transporter of Salmonella enterica Typhimurium from Salmonella typhimurium (see 3 papers)
NP_461294 histidine and lysine/arginine/ornithine transport protein from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
STM14_2898 histidine ABC transporter permease HisM from Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
32% identity, 89% coverage
- function: Part of the ABC transporter complex HisPMQJ involved in histidine transport (PubMed:7050725, PubMed:9520394). Is also part of the ABC transporter complex HisPMQ-ArgT involved in lysine/arginine/ornithine transport (PubMed:24021237). Probably responsible for the translocation of the substrate across the membrane (Probable). Required to relay the ATPase-inducing signal from the solute-binding protein to HisP (PubMed:9520394).
subunit: The HisPMQJ complex is composed of two ATP-binding proteins (HisP), two transmembrane proteins (HisM and HisQ) and a solute-binding protein (HisJ) (PubMed:2033074, PubMed:7050725, PubMed:9520394). The HisPMQ-ArgT complex is composed of two ATP-binding proteins (HisP), two transmembrane proteins (HisM and HisQ) and a solute-binding protein (ArgT) (PubMed:24021237). - 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) - Evidence from Mutational Analysis for a Single Transmembrane Substrate Binding Site in the Histidine ATP-Binding Cassette Transporter of Salmonella enterica Serovar Typhimurium
Heuveling, Journal of bacteriology 2019 - GeneRIF: The authors propose that one substrate molecule is primarily liganded by residues of HisM while HisQ-D61 forms a crucial salt bridge with the alpha-amino group of the substrate.
- “...transporter (GenBank accession no. NP_461295 and NP_461294); AotM_PA and AotQ_PA, membrane-spanning subunits of the Pseudomonas aeruginosa arginine/ornithine...”
- Evidence from Mutational Analysis for a Single Transmembrane Substrate Binding Site in the Histidine ATP-Binding Cassette Transporter of Salmonella enterica Serovar Typhimurium.
Heuveling, Journal of bacteriology 2019 - GeneRIF: The authors propose that one substrate molecule is primarily liganded by residues of HisM while HisQ-D61 forms a crucial salt bridge with the alpha-amino group of the substrate.
- “...transporter (GenBank accession no. NP_461295 and NP_461294); AotM_PA and AotQ_PA, membrane-spanning subunits of the Pseudomonas aeruginosa arginine/ornithine...”
- The second extracellular loop of pore-forming subunits of ATP-binding cassette transporters for basic amino acids plays a crucial role in interaction with the cognate solute binding protein(s)
Eckey, Journal of bacteriology 2010 - “...transporter (GenBank accession no. NP_461295 and NP_461294); and ArtM_GST, membrane-spanning subunit of the arginine transporter of G. stearothermophilus...”
- 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 - “...not affected by arginine exposure Arginine transport STM14_2897 hisP histidine/lysine/arginine/ornithine transporter subunit 1.19 0.58936 0.97854 STM14_2898 hisM histidine/lysine/arginine/ornithine transport protein 1.50 0.44912 0.93284 STM14_2899 hisQ histidine/lysine/arginine/ornithine transport protein 0.76 0.59059 0.97854 STM14_5166 yjdE, adiC arginine:agmatin antiporter 1.00 0.58828 0.97854 Arginine metabolism STM14_5357 STM14_5357 putative arginine repressor...”
HP0939 amino acid ABC transporter, permease protein (yckJ) from Helicobacter pylori 26695
28% identity, 92% coverage
- <i>Helicobacter pylori</i> Efflux Pumps: A Double-Edged Sword in Antibiotic Resistance and Biofilm Formation
Krzyżek, International journal of molecular sciences 2024 - “...after exposure to clarithromycin: HP0471 (KefB, potassium ion transport), HP0497 (sodium and chlorine ion transport), HP0939 (YckJ, amino acid transport) and HP1017 (RocE, amino acid transport). It was proved that the average expression of genes encoding these four transporters was significantly higher in clinical strains with...”
- “...in susceptible ones. Additionally, it was observed that the deletion of hp0471 , hp0497 or hp0939 in clarithromycin-resistant strains was accompanied by a reduction or a complete loss of resistance to this antibiotic. In another original article by this team [ 64 ], the authors decided...”
- Transcending antibiotic resistance: The potential of mass Galla chinensis et camelliae Fermentata to Dismantle Helicobacter pylori biofilms and enhance anti-biotic activity
Zhang, Journal of ethnopharmacology 2024 (PubMed) (secret) - Clarithromycin sustained-release tablet may be an improper therapy for the eradication of Helicobacter pylori
Zuo, Therapeutic advances in gastroenterology 2024 - “...the SpoT locus is involved in H. pylori tolerance to clarithromycin by upregulating the transporters HP0939, HP1017, HP0497, and HP0471. For antibiotic-resistant strains, higher drug concentrations may result in superior bactericidal effects. This may explain why the sustained-release tablets were less effective than the dispersible tablets...”
- “...enzyme SpoT is involved in the clarithromycin tolerance of Helicobacter pylori by upregulating the transporters HP0939, HP1017, HP0497, and HP0471 . Antimicrob Agents Chemother 2017 ; 61 ( 5 ): e02011e02016. 41 Chen CL Wu IT Wu DC , et al . Independent risk factors predicting...”
- Molecular Mechanisms of Biofilm Formation in <i>Helicobacter pylori</i>
Fauzia, Antibiotics (Basel, Switzerland) 2024 - “...gene expression on the biofilm forming was also reported [ 95 ]. Other efflux genes, hp0939 , hp0497 , and hp0471 , were highly expressed in the clinical isolates with multidrug resistance strains. When these genes were knocked out, the strains were more antibiotic-sensitive, and the...”
- “...Pathog. 2019 132 100 108 10.1016/j.micpath.2019.04.030 31034965 96. Cai Y. Wang C. Chen Z. Transporters HP0939, HP0497, and HP0471 participate in intrinsic multidrug resistance and biofilm formation in Helicobacter pylori by enhancing drug efflux Helicobacter 2020 25 e12715 10.1111/hel.12715 32548895 97. Grande R. Campli E.D. Bartolomeo...”
- Biofilm of Helicobacter pylori: Life Cycle, Features, and Treatment Options
Elshenawi, Antibiotics (Basel, Switzerland) 2023 - “...), Hp971 ( hefD ), Hp1327 ( hefG ), Hp1489, Hp1118, Hp1174 ( gluP ), HP0939, HP0497, and HP0471 (KefB), were found to be expressed in both planktonic and biofilm cells, suggesting that efflux pump is essential during H. pylori life cycles [ 83 , 122...”
- “...and increased susceptibility to different types of antibiotics [ 83 ]. Additionally, genetic deletions in HP0939, HP0497, and KefB also conferred with a biofilm defect [ 123 ]. H. pylori strains isolated from Nigeria while no association with hefG was detected [ 124 ]. Cumulatively, hefD...”
- Antibiotic resistance in Helicobacter pylori: From potential biomolecular mechanisms to clinical practice
Lin, Journal of clinical laboratory analysis 2023 - “...pump system, leading to the development of MDR in H.pylori strains. 125 In addition, transporters HP0939, HP0497, and HP0471 participate in intrinsic multidrug resistance in H.pylori by enhancing drug efflux, which significantly promotes the expression of hef A and glu P in MDR strains. 126 Moreover,...”
- “...membrane protein, and virulence factors, respectively. 133 Interestingly, except for the above genes, the genes hp0939 , hp0497 , and hp0471 , which affect efflux pump function, were also found to be correlated with biofilm formation in H.pylori . 127 Experiments confirm that the corresponding knockout...”
- Identification of an Essential LolD-Like Protein in Helicobacter pylori
McClain, Journal of bacteriology 2023 (secret) - Helicobacter pylori Biofilm-Related Drug Resistance and New Developments in Its Anti-Biofilm Agents
Hou, Infection and drug resistance 2022 - “...efflux pump HP1174 and the neutrophil-activating protein (NapA; HP0243). 28 , 29 The transporter proteins HP0939, HP0497, and HP0471 are implicated in H. pylori biofilm formation. 30 Methods for Detecting Biofilms The most frequently used staining method for the quantitative determination of in vitro biofilms grown...”
- “...doi: 10.1128/AAC.00152-21 30. Cai Y , Wang C , Chen Z , et al. Transporters HP0939, HP0497, and HP0471 participate in intrinsic multidrug resistance and biofilm formation in Helicobacter pylori by enhancing drug efflux . Helicobacter . 2020 ; 25 ( 4 ): e12715 . doi:...”
- More
RSp1576 amino acid ABC transporter permease from Ralstonia pseudosolanacearum GMI1000
36% identity, 80% coverage
VP0007 amino acid ABC transproter, permease protein from Vibrio parahaemolyticus RIMD 2210633
32% identity, 90% coverage
- Molecular analysis of the emergence of pandemic Vibrio parahaemolyticus
Boyd, BMC microbiology 2008 - “...file 4 ). VPaI-9 is a 22 kb region integrated between homologues of VP0006 and VP0007. VPaI-9 encodes an integrase, an excisionase, a helicase and a type I restriction modification system. ORFs VP1386 to VP1420 are absent from AQ3810. This regions encodes T6SS (ORFs VP1401 to...”
VpaChn25_2987 amino acid ABC transporter permease from Vibrio parahaemolyticus
32% identity, 90% coverage
SMb20429 putative amino acid ABC transporter permease protein from Sinorhizobium meliloti 1021
34% identity, 97% coverage
BOV_A0639 amino acid ABC transporter, permease protein from Brucella ovis ATCC 25840
35% identity, 91% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...Cystine import ABC BMEII0599 BruAb20545 BRA0684 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...”
SSA_1961 Amino acid ABC transporter, amino acid-binding protein/permease protein, putative from Streptococcus sanguinis SK36
28% identity, 41% coverage
CD2175 probable amino-acid ABC transporter, permease protein from Clostridium difficile 630
28% identity, 93% coverage
Dde_1430 Glutamate/aspartate transport system permease from Desulfovibrio desulfuricans G20
32% identity, 87% coverage
AKL23_RS00860 ABC transporter substrate-binding protein/permease from Streptococcus thermophilus
30% identity, 41% 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_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_07640...”
SGO_1727 amino acid-binding permease protein from Streptococcus gordonii str. Challis substr. CH1
28% identity, 41% coverage
ARTQ_BACSU / P54536 Arginine transport system permease protein ArtQ from Bacillus subtilis (strain 168) (see paper)
28% identity, 92% coverage
- function: Part of a binding-protein-dependent transport system for arginine. Probably responsible for the translocation of the substrate across the membrane.
disruption phenotype: Cells show impaired growth on arginine as the nitrogen source.
lmo0847 similar to Glutamine ABC transporter (binding and transport protein) from Listeria monocytogenes EGD-e
NP_464373 glutamine ABC transporter from Listeria monocytogenes EGD-e
28% identity, 44% coverage
- Acid shock of Listeria monocytogenes at low environmental temperatures induces prfA, epithelial cell invasion, and lethality towards Caenorhabditis elegans
Neuhaus, BMC genomics 2013 - “...set of genes encoding the following predicted functions: a transcriptional regulator (lmo0109), glutamine ABC transporter (lmo0847 and lmo1740), a subunit of a sugar ABC transporter (lmo1389), the IIA component of a mannose-specific phosphotransferase system (PTS, lmo1997), a protein similar to glutamate decarboxylases (lmo2434), and a stress...”
- “...were selected for microarray validation by qRT-PCR: prfA , hly , flhB, cheA , lmo0109, lmo0847, lmo1740, rsbR , lmo1389, lmo1997, lmo2434, and lmo2784 (see Additional file 3 for more functional details). The validated genes checked at various time points () displayed a significant correlation (level...”
- Membrane chaperone SecDF plays a role in the secretion of Listeria monocytogenes major virulence factors
Burg-Golani, Journal of bacteriology 2013 - “...lmo0688 lmo0692 lmo0697 lmo0706 lmo0708 lmo0713 lmo0724 lmo0847 20bp upstream lmo1072 lmo1527 lmo1687 lmo1693 lmo1855 lmo1856 lmo2110 lmo2531 lmo2715 lmo2461...”
- Dual role of CcpC protein in regulation of aconitase gene expression in Listeria monocytogenes and Bacillus subtilis
Mittal, Microbiology (Reading, England) 2013 - “...of citB as well as of citZ and the lmo0847 gene, which encodes a putative glutamine transporter (Kim et al., 2006; Mittal et al., 2009). The organization...”
- “...Microbiol 185, 136-146. regulation of citB and lmo0847 in Listeria monocytogenes. J Bacteriol 188, 179-190. http://mic.sgmjournals.org family regulator. J Mol...”
- Characterization of the intracellular glutamate decarboxylase system: analysis of its function, transcription, and role in the acid resistance of various strains of Listeria monocytogenes
Karatzas, Applied and environmental microbiology 2012 - “...acidified DM (Glt). Glutamine is probably imported by Lmo0847, a putative glutamine transporter (19), and subsequently converted to Glti. Pools of Glti could be...”
- “...Sonenshein AL. 2006. CcpC-dependent regulation of citB and lmo0847 in Listeria monocytogenes. J. Bacteriol. 188:179 -190. Murray EGD, Webb RA, Swann MBR. 1926....”
- Listeria monocytogenes grown at 7° C shows reduced acid survival and an altered transcriptional response to acid shock compared to L. monocytogenes grown at 37° C
Ivy, Applied and environmental microbiology 2012 - “...lmo0681 lmo0683 lmo0806 lmo0808 lmo0809 lmo0810 lmo0811 lmo0847 lmo0848 lmo1041 lmo1046 lmo1089 (tagD) Similar to protein gp35 from bacteriophage A118 Similar...”
- Global transcriptional analysis of spontaneous sakacin P-resistant mutant strains of Listeria monocytogenes during growth on different sugars
Tessema, PloS one 2011 - “...3 0.8 10 3 lmo0541 ABC transporter (binding protein) 0.8 10 3 1.0 10 3 lmo0847 glutamine ABC transporter (binding and transport protein) 0.7 10 5 1.0 10 5 lmo0848 amino acid ABC transporter, ATP-binding protein 0.7 10 5 0.9 10 4 lmo1007 unknown 0.7 10...”
- “..., citZ and citB (oxidation portion of tricarboxylic acid cycle) [39] , [40] , and lmo0847 (a putative glutamine ATP-binding cassette (ABC) transporter) [39] . In addition a number of pts and other transporter and utilization genes for sugars that was not present in the growth...”
- Pyruvate carboxylase plays a crucial role in carbon metabolism of extra- and intracellularly replicating Listeria monocytogenes
Schär, Journal of bacteriology 2010 - “...mutant, probably by the gene products of lmo0847 and lmo1740, encoding putative GltK-homologous ABC transporters for glutamate/aspartate. Nevertheless, even an...”
- Genomic and proteomic analysis of the Alkali-Tolerance Response (AlTR) in Listeria monocytogenes 10403S
Giotis, BMC microbiology 2008 - “...permease protein TagG lmo2250 arpJ -3.65 0.007 Similar to amino acid ABC transporter, permease protein lmo0847 NA -3.34 0.008 Similar to glutamine ABC transporter (binding and transport protein) lmo0997 clpE 3.64 0.013 ATP-dependent protease LMOf2365_2469 NA 3.44 0.025 Anions Phosphate ABC transporter, ATP-binding protein LMOf2365_2470 NA...”
- More
- CcpC-dependent regulation of citB and lmo0847 in Listeria monocytogenes.
Kim, Journal of bacteriology 2006 - GeneRIF: regulated by CcpC in media containing an excess of glucose and glutamine.
BP1363 putative amino-acid ABC transporter, permease protein from Bordetella pertussis Tohama I
B1917_RS12580 amino acid ABC transporter permease from Bordetella pertussis B1917
34% identity, 96% coverage
- 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 - “...uptake at the 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...”
- “...(log 2 counts) bp3095 modA Molybdate ABC transporter substrate-binding protein 5 . 31 7.14E-14 8.65 bp1363 Amino acid ABC transporter permease 3 . 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 ....”
- Differentially expressed genes in Bordetella pertussis strains belonging to a lineage which recently spread globally
de, PloS one 2014 - “...synthase C 4.7 * 3.2 BP1362 amino-acid ABC transporter, ATP-binding protein 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...”
- Towards comprehensive understanding of bacterial genetic diversity: large-scale amplifications in Bordetella pertussis and Mycobacterium tuberculosis
Abrahams, Microbial genomics 2022 - “...). 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 isolates,...”
HisM / b2307 lysine/arginine/ornithine ABC transporter / histidine ABC transporter, membrane subunit HisM (EC 7.4.2.1) from Escherichia coli K-12 substr. MG1655 (see 2 papers)
HISM_ECOLI / P0AEU3 Histidine/lysine/arginine/ornithine transport system permease protein HisM from Escherichia coli (strain K12) (see paper)
TC 3.A.1.3.29 / P0AEU3 Histidine transport system permease protein HisM, 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)
BC33_RS10400 ABC transporter permease from Escherichia coli ATCC 700728
b2307 histidine/lysine/arginine/ornithine transporter subunit from Escherichia coli str. K-12 substr. MG1655
ECs3191 histidine transport system membrane protein M from Escherichia coli O157:H7 str. Sakai
30% identity, 92% coverage
AO353_21720 ABC transporter for D-glucosamine, permease component 2 from Pseudomonas fluorescens FW300-N2E3
31% identity, 91% coverage
- mutant phenotype: # Specifically important in nitrogen source D-Glucosamine Hydrochloride; carbon source D-Glucosamine Hydrochloride
LMRG_02270 glutamine ABC transporter, permease/substrate-binding protein from Listeria monocytogenes 10403S
28% identity, 44% coverage
- L-glutamine Induces Expression of Listeria monocytogenes Virulence Genes
Haber, PLoS pathogens 2017 - “...as well as newly identified potential virulence factors [ 21 ]. One of these genes, LMRG_02270 , which encodes a polypeptide that is a fusion of a substrate-binding protein (SBP) and a transmembrane domain (TMD) of an ATP Binding Cassette (ABC) transporter, was chosen for further...”
- “...Deletion of LMRG_022701 genes leads to a reduced type I interferon response in macrophage cells LMRG_02270 is the first gene of a two-gene operon ( Fig 1A ), the second of which, LMRG_02271 , contains all of the canonical motifs of a nucleotide-binding domain (NBD) of...”
YXEN_BACSU / P54953 Probable amino-acid permease protein YxeN from Bacillus subtilis (strain 168) (see paper)
QU35_21320 amino acid ABC transporter permease from Bacillus subtilis subsp. subtilis str. 168
36% identity, 77% coverage
- function: Probably part of the ABC transporter complex YxeMNO that could be involved in amino-acid import. May transport S-methylcysteine. Probably responsible for the translocation of the substrate across the membrane (Probable).
subunit: The complex is composed of two ATP-binding proteins (YxeO), two transmembrane proteins (YxeN) and a solute-binding protein (YxeM). - Lessons and Considerations for the Creation of Universal Primers Targeting Non-Conserved, Horizontally Mobile Genes
Brown, Applied and environmental microbiology 2021 - “...genes encoding proteins ranging from hypothetical proteins (QU35_15730, Tmz1t_0375, and Tmz1t_0977) to transporter permeases (QU35_06380, QU35_21320, and QU35_18115), a putative symporter (PP_3247), polymerases (Awo_c25450 and Tmz1t_3813), isomerases (DvMF_3022 and QU35_19985), and regulators and stress proteins (QU35_03275, DvMF_0255, PP_1269, and PP_3526). The lower percent identity matches (80.0...”
- Identification of a metabolic disposal route for the oncometabolite S-(2-succino)cysteine in Bacillus subtilis
Niehaus, The Journal of biological chemistry 2018 (secret)
SE1992 ABC transporter (permease protein) from Staphylococcus epidermidis ATCC 12228
36% identity, 72% coverage
- Transporters and Efflux Pumps Are the Main Mechanisms Involved in Staphylococcus epidermidis Adaptation and Tolerance to Didecyldimethylammonium Chloride
Ribič, Microorganisms 2020 - “...The transporter gene for Lcysteine, tcyB , was among the most upregulated transporters in SE18To (SE1992, 16.0fold). Together, tcyA , tcyB and tcyC encode the ABC transporter, which is responsible for uptake of cysteine, as required for cell growth. It has been suggested that in an...”
- “...Phosphate ABC transporter SE2321 metI 19.6 ABC transporter permease SE0334 11.8 Arsenic efflux pump protein SE1992 tcyB 10.5 ABC transporter permease SE0681 oppC 8.1 Oligopeptide transport system permease OppC SE1067 pstB 8.0 Phosphate transporter ATP-binding protein SE2322 metN 5.4 ABC transporter ATP-binding protein Two-component system SE0164...”
DVU1237 amino acid ABC transporter, permease protein, His/Glu/Gln/Arg/opine family from Desulfovibrio vulgaris Hildenborough
31% identity, 74% coverage
lin0840 similar to Glutamine ABC transporter (binding and transport protein) from Listeria innocua Clip11262
28% identity, 44% coverage
SSU1852 amino-acid ABC transporter permease protein from Streptococcus suis P1/7
SSU05_2068 ABC-type amino acid transport system, permease component from Streptococcus suis 05ZYH33
B9H01_RS09935 amino acid ABC transporter permease from Streptococcus suis
30% identity, 97% coverage
- Identification of conditionally essential genes for Streptococcus suis infection in pigs
Arenas, Virulence 2020 - “...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 5.1 SSU1583 manL Mannose-specific phosphotransferase system 7.4 6.2 SSU0751 potA Part of permidine/putrescine ABC transporter 7.8...”
- Rapid evolution of virulence and drug resistance in the emerging zoonotic pathogen Streptococcus suis
Holden, PloS one 2009 - “...toxin protein + + + + SSU1796 toxin-antitoxin system, antitoxin protein + + + + SSU1852 putative amino-acid ABC transporter permease protein + + + SSU1866 metal cation ABC transporter membrane protein + + + SSU1872 CAAX amino terminal protease family protein + + + SSU1881...”
- Genome-wide analysis of an avirulent strain that induces protective immunity against challenge with virulent Streptococcus suis serotype 2
Wang, BMC microbiology 2017 - “...PSN_CDS01399 SSU05_1663 Muramidase-released protein ( mrp ) PSN_CDS00463* SSU05_0753 Agglutinin receptor PSN_CDS02376 SSU05_0965 Adhesin PSN_CDS04016 SSU05_2068 PSN_CDS00076 SSU05_0112 PSN_CDS00520 SSU05_0330 Autotransporter adhesion PSN_CDS00785 * SSU05_0474 Cell surface factors Extracellular protein factor ( ef ) - SSU05_0177 - SSU05_0178 Exotoxins Hemolysin III homolog PSN_CDS02424 SSU05_0994 Putative hemolysin...”
- 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 - “...acid ABC transporter substrate-binding protein genes (B9H01_RS09940) and the amino acid ABC transporter permease gene (B9H01_RS09935) were downregulated, and the amino acid ABC transporter ATP-binding protein genes (B9H01_RS06570, B9H01_RS09040, and B9H01_RS05040) were upregulated in mutant covR compared to SC19. The amino acid ABC transporter is a...”
GLNM_BACSU / O34671 Probable glutamine ABC transporter permease protein GlnM from Bacillus subtilis (strain 168) (see paper)
31% identity, 92% coverage
- function: Part of the ABC transporter complex GlnHMPQ involved in glutamine transport. Probably responsible for the translocation of the substrate across the membrane (By similarity).
subunit: The complex is composed of two ATP-binding proteins (GlnQ), two transmembrane proteins (GlnM and GlnP) and a solute-binding protein (GlnH).
A9497_06995 ABC transporter substrate-binding protein/permease from Streptococcus thermophilus
29% identity, 41% coverage
- Technological and Genomic Analysis of Roles of the Cell-Envelope Protease PrtS in Yoghurt Starter Development
Tian, International journal of molecular sciences 2018 - “...transporter 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...”
AKL23_RS07020 ABC transporter substrate-binding protein/permease from Streptococcus thermophilus
29% identity, 27% 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...”
CT129 ABC Amino Acid Transporter Permease from Chlamydia trachomatis D/UW-3/CX
31% identity, 87% coverage
stu0159 polar amino acid ABC uptake transporter substrate binding protein/membrane-spanning protein from Streptococcus thermophilus LMG 18311
29% identity, 41% coverage
- Transcriptome analysis of adaptive heat shock response of Streptococcus thermophilus
Li, PloS one 2011 - “...3 threonine synthase stu0363 E livF 1.8 3.8 branched-chain amino acid transport system ATP-binding protein stu0159 E - 3.6 3.1 polar amino acid transport substrate-binding protein stu1461 E nifS3 5 3.5 Putative cysteine desulfurase stu0479 C atpB 3.2 3.3 F0F1 ATP synthase stu0478 C atpE 6.3...”
- “...Several genes related to ABC transporters are differentially expressed at 50C. stu0158 (ATP-binding protein) and stu0159 (substrate binding protein), forming an operon involved in polar amino acid transport, are significantly down-regulated more than 2 and 3 folds at 50C, respectively. The three genes associated with branched-chain...”
IYO_RS16960 ectoine/hydroxyectoine ABC transporter permease subunit EhuC from Pseudomonas syringae pv. actinidiae ICMP 18884
35% identity, 76% coverage
SMc03133 PUTATIVE AMINO-ACID TRANSPORT SYSTEM PERMEASE ABC TRANSPORTER PROTEIN from Sinorhizobium meliloti 1021
29% identity, 66% coverage
- Inter-replicon Gene Flow Contributes to Transcriptional Integration in the Sinorhizobium meliloti Multipartite Genome
diCenzo, G3 (Bethesda, Md.) 2018 - “...( smc03027 + :: lacZ ), SmFL1485 ( sma0089 + :: gusA ), SmFL1705 ( smc03133 - :: gusA ), SmFL4407 ( smc03121 + :: lacZ ), SmFL6033 ( smc02780 + :: gusA ), and SmFL6082 ( smb21039 - :: lacZ ). Each fusion was recombined...”
- Transcriptome analysis of the role of GlnD/GlnBK in nitrogen stress adaptation by Sinorhizobium meliloti Rm1021
Yurgel, PloS one 2013 - “...expression of some of the genes comprising Cluster II.I. The D,L-2-aminoadipic acid transport system (SMc03131, SMc03133, and SMc03135) was also induced in wild type cells and repressed in the glnD mutant under high nitrogen. D,L-2-aminoadipic acid acts as a glutamine synthetase inhibitor [38] . The induction...”
AO356_00470 ABC transporter for D-Glucosamine, permease component 1 from Pseudomonas fluorescens FW300-N2C3
Pf6N2E2_2051 ABC transporter for D-Glucosamine Hydrochloride, permease component 1 from Pseudomonas fluorescens FW300-N2E2
31% identity, 91% coverage
- mutant phenotype: Specific phenotypes on D-Glucosamine Hydrochloride. Detrimental on D-serine as N source
- mutant phenotype: Specific phenotypes on D-Glucosamine Hydrochloride.
MSMEG_6307, MSMEI_6142 ABC transporter permease subunit from Mycolicibacterium smegmatis MC2 155
A0R5T7 Glutamine-binding periplasmic protein/glutamine transport system permease protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
MSMEG_6307 glutamine-binding periplasmic protein/glutamine transport system permease protein from Mycobacterium smegmatis str. MC2 155
33% identity, 44% coverage
- Interactome Analysis Identifies MSMEI_3879 as a Substrate of Mycolicibacterium smegmatis ClpC1
Ogbonna, Microbiology spectrum 2023 - “...5 0.05 0.03 A0QWJ3 secF , MSMEG_2962, MSMEI_2888 Protein-export membrane protein SecF 0.02 0 A0R5T7 MSMEG_6307, MSMEI_6142 Glutamine-binding periplasmic protein 0.05 0.06 A0R2C0 sugC , MSMEG_5058, MSMEI_4931 ABC transporter, ATP-binding protein SugC 0.02 0.01 A0QT21 MSMEG_1683, MSMEI_1642 Cytosine/purine/uracil/thiamine/allantoin permease family protein 0.02 0.02 A0QVX3 MSMEG_2727, MSMEI_2660...”
- “...0.05 0.03 A0QWJ3 secF , MSMEG_2962, MSMEI_2888 Protein-export membrane protein SecF 0.02 0 A0R5T7 MSMEG_6307, MSMEI_6142 Glutamine-binding periplasmic protein 0.05 0.06 A0R2C0 sugC , MSMEG_5058, MSMEI_4931 ABC transporter, ATP-binding protein SugC 0.02 0.01 A0QT21 MSMEG_1683, MSMEI_1642 Cytosine/purine/uracil/thiamine/allantoin permease family protein 0.02 0.02 A0QVX3 MSMEG_2727, MSMEI_2660 Glutamate-binding...”
- Elucidating the role of c-di-AMP in Mycobacterium smegmatis: Phenotypic characterization and functional analysis
Chaudhary, Heliyon 2023 - “...transporter permease protein YliD 1.32 0.044 12 MSMEG_0549 ABC transporter, permease protein 1.35 0.040 13 MSMEG_6307 Glutamine-binding periplasmic protein/glutamine transport system permease protein 1.49 0.036 14 MSMEG_1064 Phosphate transporter 1.43 0.039 15 MSMEG_0140 Probable conserved mce associated membrane protein 1.42 0.038 16 MSMEG_0142 Mammalian cell entry...”
- Interactome Analysis Identifies MSMEI_3879 as a Substrate of Mycolicibacterium smegmatis ClpC1
Ogbonna, Microbiology spectrum 2023 - “...protein 5 0.05 0.03 A0QWJ3 secF , MSMEG_2962, MSMEI_2888 Protein-export membrane protein SecF 0.02 0 A0R5T7 MSMEG_6307, MSMEI_6142 Glutamine-binding periplasmic protein 0.05 0.06 A0R2C0 sugC , MSMEG_5058, MSMEI_4931 ABC transporter, ATP-binding protein SugC 0.02 0.01 A0QT21 MSMEG_1683, MSMEI_1642 Cytosine/purine/uracil/thiamine/allantoin permease family protein 0.02 0.02 A0QVX3 MSMEG_2727,...”
PA4194 probable permease of ABC transporter from Pseudomonas aeruginosa PAO1
32% identity, 91% coverage
B488_06120 amino acid ABC transporter permease from Liberibacter crescens BT-1
35% identity, 89% coverage
SP_0823 amino acid ABC transporter, permease protein from Streptococcus pneumoniae TIGR4
30% identity, 96% coverage
Ldb1299 Amino Acid ABC transporter, substrate binding /permease protein from Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842
27% identity, 44% 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
30% identity, 29% 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...”
LBA0134 glutamine ABC transporter permease protein from Lactobacillus acidophilus NCFM
28% identity, 44% coverage
EP10_002624 amino acid ABC transporter permease from Geobacillus icigianus
31% identity, 95% coverage
- The Transcriptomic Response of Cells of the Thermophilic Bacterium <i>Geobacillus icigianus</i> to Terahertz Irradiation
Peltek, International journal of molecular sciences 2024 - “...(EP10_002156) and genes encoding transporters of glutamine and other amino acids (EP10_000138, EP10_001536, EP10_002622, EP10_00263, EP10_002624, and EP10_002625). These data indicate the beginning of a recovery of systems responsible for the utilization of amino acids and of other carbon sources from the environment; this is because...”
- “...1.222678 0.000381 Glutamine transport ATP-binding protein GlnQ EP10_002623 1.151767 0.003803 ABC transporter glutamine-binding protein GlnH EP10_002624 1.383302 0.00058 Putative glutamine ABC transporter permease protein GlnM, EP10_002625 1.382731 0.001782 Putative glutamine ABC transporter permease protein GlnP ijms-25-12059-t005_Table 5 Table 5 Genes and operons whose levels of transcription...”
NP_387382 PUTATIVE AMINO-ACID TRANSPORT SYSTEM PERMEASE ABC TRANSPORTER PROTEIN from Sinorhizobium meliloti 1021
32% identity, 97% coverage
VC1861 amino acid ABC transporter, permease protein from Vibrio cholerae O1 biovar eltor str. N16961
27% identity, 93% coverage
Q72F28 Amino acid ABC transporter, permease protein, His/Glu/Gln/Arg/opine family from Nitratidesulfovibrio vulgaris (strain ATCC 29579 / DSM 644 / CCUG 34227 / NCIMB 8303 / VKM B-1760 / Hildenborough)
32% identity, 92% coverage
- Synergy of Sodium Nitroprusside and Nitrate in Inhibiting the Activity of Sulfate Reducing Bacteria in Oil-Containing Bioreactors.
Fida, Frontiers in microbiology 2018 - “...proteins (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...”
Msp_0959 predicted ABC-type polar amino acid transport system, permease protein from Methanosphaera stadtmanae DSM 3091
28% identity, 92% coverage
PPYC1_20185 amino acid ABC transporter substrate-binding protein/permease from Paenibacillus polymyxa
29% identity, 45% coverage
UE46_13335 ABC transporter permease subunit from Listeria weihenstephanensis
28% identity, 41% coverage
LBAT_0132 ABC transporter substrate-binding protein/permease from Lactobacillus acetotolerans
29% identity, 40% coverage
TC 3.A.1.3.6 / P35113 NocM aka ATU6025 aka AGR_PTI_65, component of Nopaline porter from Agrobacterium tumefaciens (see 3 papers)
33% identity, 83% coverage
4ymtC / Q8RCC3 Crystal structure of an amino acid abc transporter complex with arginines (see paper)
28% identity, 94% coverage
PP0656 amino acid ABC transporter, permease protein, putative from Pseudomonas putida KT2440
32% identity, 77% coverage
GALLO_RS03395 amino acid ABC transporter permease from Streptococcus gallolyticus UCN34
29% identity, 97% coverage
- Genome-Based Drug Target Identification in Human Pathogen Streptococcus gallolyticus
Qureshi, Frontiers in genetics 2021 - “...PAAT family GALLO_RS02740 DEG10300014 38.71 DNA-binding response regulator GALLO_RS02995 DEG10430209 38.197 16S rRNA methyltransferase B GALLO_RS03395 DEG10180247 36.364 Glutamine ABC transporter permease GALLO_RS03550 DEG10450136 35.789 Penicillin-binding protein 2B GALLO_RS03570 DEG10460377 35.294 UDP-N-acetylmuramoyl-tripeptideD-alanyl-D-alanine ligase GALLO_RS03600 DEG10050249 35.135 1-acyl-sn-glycerol-3-phosphate acyltransferase Drug Target Prioritization To determine the potential therapeutic...”
Z3569 histidine transport, membrane protein M from Escherichia coli O157:H7 EDL933
30% identity, 92% coverage
Dde_3743 amino acid ABC transporter permease from Desulfovibrio desulfuricans G20
30% identity, 93% coverage
BCAN_B0681 amino acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family from Brucella canis ATCC 23365
34% identity, 91% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...import ABC BMEII0599 BruAb20545 BRA0684 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...”
DVU2340 amino acid ABC transporter, permease protein, His/Glu/Gln/Arg/opine family from Desulfovibrio vulgaris Hildenborough
33% identity, 91% coverage
- Prediction and Characterization of Missing Proteomic Data in Desulfovibrio vulgaris
Li, Comparative and functional genomics 2011 - “...exporter DVU1068 3.92 301.98 x 5.76 270.52 x Branched-chain amino acid ABC transporter, permease proteins DVU2340 6.00 11276.00 x 7.00 11625.00 x Amino acid ABC transporter, permease protein DVU2572 3.19 2831.50 x 5.77 7937.50 x Ferrous iron transport protein A DVU2574 4.62 5005.50 x 8.85 8857.00...”
LMH90_018100 glutamine ABC transporter permease GlnP from Enterobacter hormaechei
29% identity, 93% coverage
lin2352 similar to amino acid ABC transporter, permease protein from Listeria innocua Clip11262
26% identity, 42% coverage
CA_C3619, CEA_G3626 amino acid ABC transporter permease from Clostridium acetobutylicum EA 2018
CAC3619 Amino acid ABC transporter, permease component from Clostridium acetobutylicum ATCC 824
31% 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 - “...-2.33371 4.975742 4.579403 4.356899 3.79613 1.400104 ABC-type polar amino acid transport system, 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...”
- “...CA_C3618 -2.33371 4.975742 4.579403 4.356899 3.79613 1.400104 ABC-type polar amino acid transport system, 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...”
- Transcription factors and genetic circuits orchestrating the complex, multilayered response of Clostridium acetobutylicum to butanol and butyrate stress
Wang, BMC systems biology 2013 - “...genes (e.g., argF/I (CAC0316), argG-argH (CAC0973-CAC0974), argB-argD (CAC2389-CAC2388), argC-argJ (CAC2390-CAC2391), carB (CAC2644), carA (CAC2645) and CAC3619 (coding for amino acid ABC transporter component)) exhibited dose- and time-dependent expression for both butanol and butyrate stresses (Figure 4 A and Additional file 2 : Figure S6). For example,...”
- Meta-analysis and functional validation of nutritional requirements of solventogenic Clostridia growing under butanol stress conditions and coutilization of D-glucose and D-xylose
Heluane, Applied and environmental microbiology 2011 - “...CAC3164 CAC3348 CAC3618 0.003458938 0.000180346 0.000132942 E CAC3619 0.006894683 a The meta-analysis includes time course microarray experiments at 0, 10, 30,...”
BRA0683 amino acid ABC transporter, permease protein from Brucella suis 1330
34% identity, 91% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...PAO Cystine import ABC BMEII0599 BruAb20545 BRA0684 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...”
SSU1675 glutamine ABC transporter, glutamine-binding protein/permease protein from Streptococcus suis P1/7
SSUBM407_1747 glutamine ABC transporter, glutamine-binding protein/permease protein from Streptococcus suis BM407
B9H01_RS09035 ABC transporter substrate-binding protein/permease from Streptococcus suis
27% identity, 41% coverage
- Identification of conditionally essential genes for Streptococcus suis infection in pigs
Arenas, Virulence 2020 - “...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 5.1 SSU1583 manL Mannose-specific phosphotransferase system 7.4 6.2...”
- “...in blood [ 35 ]. Our Tn-Seq approach identified three conditionally essential glutamine transporters (SSU0883, SSU1675, SSU0447) for blood and brain but not for CSF. These observations point out variation in the acquisition of glutamine at different sites of infection. In S. pneumoniae , mutants lacking...”
- Proteomic and Bioinformatic Analysis of Streptococcus suis Human Isolates: Combined Prediction of Potential Vaccine Candidates
Prados, Vaccines 2020 - “...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 be trypsin resistant [...”
- “...family protein SSUBM407_1659 Putative mannose-specific phosphotransferase system (PTS), IID component SSUBM407_1682 Enoyl-CoA hydratase/isomerase family protein SSUBM407_1747 Glutamine ABC transporter, glutamine-binding protein/permease protein SSUBM407_1834 Nicotinamide mononucleotide transporter SSUBM407_1894 ABC transporter ATP-binding membrane protein SSUBM407_1895 ABC transporter ATP-binding membrane protein SSUBM407_1994 Putative beta-glucosidase Membrane proteins (1 TMD) SSUBM407_0010...”
- 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 - “...accuracy of RNA-seq data was validated by performing qRT-PCR on the selected DEGs. Among them, B9H01_RS09035 is glutamine ABC transporter substrate-binding protein; B9H01_RS06585 is glutamine ABC transporter permease; B9H01_RS06580 is glutamine ABC transporter permease; B9H01_RS05040 is peptide ABC transporter ATP-binding protein; B9H01_RS05035 is amino acid ABC...”
- “...1 Primers used in this study. Gene Forward (5 -3 ) Reverse (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...”
SPD_0412 amino acid ABC transporter, amino acid-binding protein/permease protein from Streptococcus pneumoniae D39
SP_0453 amino acid ABC transporter, amino acid-binding protein/permease protein from Streptococcus pneumoniae TIGR4
30% identity, 34% coverage
- SPD_1495 Contributes to Capsular Polysaccharide Synthesis and Virulence in Streptococcus pneumoniae
Zheng, mSystems 2020 - “...upregulated proteins in D39 spd1495 , such as LacB, LacD, DexB, BglA-1, SPD_0559, SPD_1664, and SPD_0412, formed a small network. These proteins are involved in carbohydrate metabolism, which supplies some of the key raw materials for CPS synthesis, such as ATP and NAD + /NADPH, etc....”
- Panproteome-wide analysis of antibody responses to whole cell pneumococcal vaccination
Campo, eLife 2018 - “...0.047 (0.0940.099) 0.192 (0.0590.274) 0.289 (0.2040.393) 0.770 (0.3361.163) Both GlnPH1 Glutamine ABC transporter permease GlnPH1 SPD_0412 1.029 (0.5731.920) 0.026 (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...”
- Lactococcus lactis, an Attractive Cell Factory for the Expression of Functional Membrane Proteins
Frelet-Barrand, Biomolecules 2022 - “...[ 7 ] ProWX ABC transporter permease- choline transporter 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...”
- A Nonadjuvanted Whole-Inactivated Pneumococcal Vaccine Induces Multiserotype Opsonophagocytic Responses Mediated by Noncapsule-Specific Antibodies
David, mBio 2022 - “...Chaperone protein DnaK (HSP70) 26,577.13844.5 19.8732.69 10.385 SP_0981 prsA Foldase protein PrsA 26,301.472,094.91 27,537.6927.66 0.066 SP_0453 Amino acid ABC transporter, amino acid-binding protein/permease protein 25,945.131,861.6 21,189.931,977.88 0.292 SP_2169 adcA Zinc-binding lipoprotein AdcA 25,479.47491.37 7,189.93965.85 1.825 SP_1032 piaA Iron-compound ABC transporter, iron compound-binding protein 24,388.131,030.42 18,096.271,649.89 0.430...”
- The Influence of B Cell Depletion Therapy on Naturally Acquired Immunity to Streptococcus pneumoniae
Ercoli, Frontiers in immunology 2020 - “...8331,8 2660,3 2366 3549,1 0.011** SP_0148 ABC transporter, substrate-binding protein 5790,6 6701 108,2 95,3 0.034* SP_0453 ATP-binding cassette (Glutamine) 4704,1 7706,9 98 100,9 0.218 SP_1174 Unknown 4627,9 2739,4 31,6 70,7 0.005** SP_1518 mltG Endolytic murein transglycosylase 4595,9 3804 0,6 1,34 0.025* SP_1732 stkP Serine/threonine-protein kinase 2650,9...”
- “...whereas IgG responses to other antigens were much more variable between mice (e.g. Sp_0148 and Sp_0453). B cell depletion decreased levels of specific anti-protein IgG to all antigens detected in untreated colonized mice, although the strength of the effect varied between antigens from approximately 50%95% reductions...”
lmo2250 similar to amino acid ABC transporter, permease protein from Listeria monocytogenes EGD-e
26% identity, 42% coverage
- The stressosome is required to transduce low pH signals leading to increased transcription of the amino acid-based acid tolerance mechanisms in Listeria monocytogenes
Guerreiro, Access microbiology 2022 - “...]). In L. monocytogenes , the arginine ABC-transporter gene, arpJ [ 45 ] (encoded by lmo2250 ), was transcriptionally upregulated under acidic conditions [ 11 ], suggesting increased import of l -arginine in response to acidification of the medium. Additionally, the acid inducible arginine decarboxylase AdiA,...”
- Lactococcus lactis, an Attractive Cell Factory for the Expression of Functional Membrane Proteins
Frelet-Barrand, Biomolecules 2022 - “...6 1% Lmo1422 binding-protein-dependent transport system permease 55.7 6 L. monocytogenes 1% [ 60 ] Lmo2250 ABC transporter 53.1 6 2% cwaA cell wall-anchored adhesion-associated protein 93.7 2 L. plantarum - [ 83 ] OppA oligopeptide-binding protein 59.7 p L. salivarius - [ 84 ] XylP...”
- The absence of N-acetylglucosamine in wall teichoic acids of Listeria monocytogenes modifies biofilm architecture and tolerance to rinsing and cleaning procedures
Brauge, PloS one 2018 - “...of the GlcNAc residue). We then tried to relate the presence of mutations in the lmo2250 gene to the sampling nature, the pulsotype, or the sampling site of the L . monocytogenes strains, but no direct relationship could be demonstrated. Indeed, several strains with different mutations...”
- An In Vivo Selection Identifies Listeria monocytogenes Genes Required to Sense the Intracellular Environment and Activate Virulence Factor Expression
Reniere, PLoS pathogens 2016 (no snippet) - Acid shock of Listeria monocytogenes at low environmental temperatures induces prfA, epithelial cell invasion, and lethality towards Caenorhabditis elegans
Neuhaus, BMC genomics 2013 - “...Mutant attenuated in survival within macrophages [ 58 ] 37C 1* 1* 2.5 2.7 2.0 lmo2250 arpJ ABC-transporter for arginine Mutant attenuated in intracellular growth [ 59 ] 37C 1* 2.3 2.0 2.0 1* See legend of Table 1 . Acid shock is characterized by a...”
- Global transcriptional analysis of spontaneous sakacin P-resistant mutant strains of Listeria monocytogenes during growth on different sugars
Tessema, PloS one 2011 - “...0.6 10 5 lmo1255 PTS trehalose specific enzyme IIBC 2.5 10 9 0.6 10 7 lmo2250 ( arpJ ) amino acid ABC transporter, permease protein 0.7 10 7 0.6 10 3 lmo2683 cellobiose PTS enzyme IIB component 1.5 10 6 1.4 10 8 lmo2684 cellobiose PTS...”
- Genomic and proteomic analysis of the Alkali-Tolerance Response (AlTR) in Listeria monocytogenes 10403S
Giotis, BMC microbiology 2008 - “...0.007 Amino acids, peptides and amines Highly similar to teichoic acid translocation permease protein TagG lmo2250 arpJ -3.65 0.007 Similar to amino acid ABC transporter, permease protein lmo0847 NA -3.34 0.008 Similar to glutamine ABC transporter (binding and transport protein) lmo0997 clpE 3.64 0.013 ATP-dependent protease...”
LMRG_01581 hypothetical protein from Listeria monocytogenes 10403S
26% identity, 42% coverage
SPD_0719 amino acid ABC transporter, permease protein from Streptococcus pneumoniae D39
29% identity, 96% coverage
LGG_RS13465 ABC transporter substrate-binding protein/permease from Lacticaseibacillus rhamnosus GG
29% identity, 45% coverage
SUB1152 glutamine ABC transporter, glutamine-binding protein/permease protein from Streptococcus uberis 0140J
32% identity, 29% coverage
SpyM3_0908 putative amino acid ABC transporter (permease protein) from Streptococcus pyogenes MGAS315
31% identity, 93% coverage
- Genomic epidemiology in Streptococcus suis: Moving beyond traditional typing techniques
Hatrongjit, Heliyon 2024 - “...salKR , manN , purD , rgg , DppIV , neuB , dltA , SMU_61-like, SpyM3_0908, and SspA ) was used to characterize S. suis serotype 2 strains from China [ 54 ]. The distribution of these 22 virulence-related genes enabled assigning the isolates to two...”
- Genomic characterization and virulence of Streptococcus suis serotype 4 clonal complex 94 recovered from human and swine samples
Hatrongjit, PloS one 2023 - “..., purD , dppIV , salK/R , fbps , endoD , dltA , epf , spyM3_0908 , mrp , neuB , rgg , gapdh , ciaR/H , sspA , sly , ofs , and SMU_61-like) identified 18 VAG profiles (VG1VG18) among Chinese S . suis serotype...”
- “...possess six VAGs ( epf , sly , endoD , rgg , SMU_61-like , and SpyM3_0908 ) that are rarely found in cluster A [ 34 , 63 ]. These six latter VAGs are often found among virulent serotype 2 strains [ 34 ]. Our analysis...”
- Genomic Characterization of Streptococcus suis Serotype 24 Clonal Complex 221/234 From Human Patients
Kerdsin, Frontiers in microbiology 2021 - “...ihk, irr, mrp, nadR, neuB, NisK/R, ofs , permease (SSU0835), rgg, revS, salK/R, sao, sly, spyM3_0908, srtBCD, srtF, srtG, SSU05_0473, virA, virB4 , and virD4. Eleven specific sequences were identified in the 3 serotype 24 genomes that differed from the genomes of the representative strains of...”
- “...ihk, irr, mrp, nadR, neuB, NisK/R, ofs , permease (SSU0835), rgg, revS, salK/R, sao, sly, spyM3_0908, srtBCD, srtF, srtG, SSU05_0473, virA, virB4 , and virD4 ( Supplementary Table 1 ). The classical VAG pofile ( epf/sly/mrp ) was completely absent in our strains. A recent study...”
- Streptococcus suis Uptakes Carbohydrate Source from Host Glycoproteins by N-glycans Degradation System for Optimal Survival and Full Virulence during Infection
Ma, Pathogens (Basel, Switzerland) 2020 - “...identified six specific genes containing epf , sly , rgg , endoSS , SMU_61-like and SpyM3_0908 that were solely encoded by virulent strains but not by low-virulent strains identified using mouse and zebrafish infection models in our previous study [ 29 ]. To further examine the...”
- Virulence genotyping and population analysis of Streptococcus suis serotype 2 isolates from China
Dong, Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2015 (PubMed)- “...salKR, manN, purD, rgg, DppIV, neuB, dltA, SMU_61-like, SpyM3_0908 (Permease) and the SspA gene. The distribution of virulence-related genes among isolates was...”
- “...that epf, sly, rgg, endoD, SMU_61-like and SpyM3_0908 were possible predictive markers for SS2 virulence. The transcription levels of highly prevalent...”
ID870_01670 amino acid ABC transporter permease from Streptococcus agalactiae CJB111
28% identity, 95% coverage
NGO2011 putative ABC transporter, permease protein, amino acid from Neisseria gonorrhoeae FA 1090
33% identity, 95% coverage
- Crystal structures of two solute receptors for L-cystine and L-cysteine, respectively, of the human pathogen Neisseria gonorrhoeae
Bulut, Journal of molecular biology 2012 (PubMed)- “...a cluster including genes encoding two transmembrane subunits (Ngo2011, Ngo2012) and an ATPase component (Ngo2013) of an ABC transporter, Ngo0372 is part of an...”
- Fur-mediated activation of gene transcription in the human pathogen Neisseria gonorrhoeae
Yu, Journal of bacteriology 2012 - “...NGO1842-NGO1841 NGO1850 NGO1851 NGO1859 NGO1865-NGO1864 NGO1913 NGO1937 NGO1957 NGO1960 NGO2011 NGO2068 NGO2116 NGO2137 NGO2162 NC ND ND NC ND ND NA NA NA NA NA...”
- Deep sequencing-based analysis of the anaerobic stimulon in Neisseria gonorrhoeae
Isabella, BMC genomics 2011 - “...-3.6 -6.3 Di- and tri-peptide permease, PRT2 sstT NGO1957 -4.5 -11.1 Sodium/serine symport protein glnM NGO2011 -6.7 -12.5 ABC-type amino acid transport system, permease component MtrR, FarR glnP NGO2012 -10.0 -10.0 ABC-type amino acid transport system, permease component FarR glnQ NGO2013 -6.3 -11.1 ABC-type amino acid...”
- MtrR modulates rpoH expression and levels of antimicrobial resistance in Neisseria gonorrhoeae
Folster, Journal of bacteriology 2009 - “...NGO1699 NGO1738 NGO1741 NGO1742 NGO1749 NGO1751 NGO1765 NGO1890 NGO2011 NGO2013 NGO2014 leuS NGO0018 potH rpoH NGO0302 bioA bioD pdxH NGO0756 brfB umpA NGO0863...”
- Two ABC transporter operons and the antimicrobial resistance gene mtrF are pilT responsive in Neisseria gonorrhoeae
Friedrich, Journal of bacteriology 2007 - “...products of the clusters NGO0372 to NGO0374 and NGO2011 to NGO2014 have highest homology to bacterial transporters that import amino acids, and NGO1368 encodes...”
- “...1. Expression of putative ABC transporter genes (NGO0372, NGO2011, and NGO2014), mtrF, and farR in strain MS11pilT 4 h postinfection. Transcript levels were...”
BMEII0600 CYSTINE TRANSPORT SYSTEM PERMEASE PROTEIN from Brucella melitensis 16M
35% identity, 86% coverage
- ATP-Binding Cassette Systems of Brucella
Jenner, Comparative and functional genomics 2009 - “...BOV_0308 93 PAO Cystine import ABC BMEII0599 BruAb20545 BRA0684 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...”
SA2201 hypothetical protein from Staphylococcus aureus subsp. aureus N315
SAV2413 ABC transporter (permease protein) from Staphylococcus aureus subsp. aureus Mu50
38% identity, 63% coverage
CPE2093 probable amino acid ABC transporter from Clostridium perfringens str. 13
30% identity, 43% coverage
SMb20430 putative amino acid ABC transporter permease protein from Sinorhizobium meliloti 1021
31% identity, 93% coverage
SPy0277 putative glutamine-binding periplasmic protein from Streptococcus pyogenes M1 GAS
27% identity, 42% coverage
- Multilocus analysis of extracellular putative virulence proteins made by group A Streptococcus: population genetics, human serologic response, and gene transcription
Reid, Proceedings of the National Academy of Sciences of the United States of America 2001 - “...spy0843, 694,643-697,669; spy0747, 607,542-610,274; spy0501, 402,159-403,352; spy0277, 241,807-243,375. eAs determined by WIT2 or BLAST analysis. fAmino acid...”
- “...genes assembled randomly in the following order: spy0277, spy1857, spy0501, spy1239, spy1972, spy0843, spy1361, spy0747, spy0872, spy1986, spy1858, and spy2211....”
SPy1507, SPy_1507 putative amino acid ABC transporter (permease protein) from Streptococcus pyogenes M1 GAS
29% identity, 97% coverage
- Distinct time-resolved roles for two catabolite-sensing pathways during Streptococcus pyogenes infection
Kietzman, Infection and immunity 2011 - “...LacD.1 but not affected by the presence of glucose (SPy_1507) and those activated by LacD.1 and repressed by CcpA (arcA, encoding a putative arginine deaminase)...”
- “...University of California, Berkeley lctO malM ackA xpt dexS SPy_1507 arcA RT-PCR b VOL. 79, 2011 ROLES OF CcpA AND LacD.1 DURING INFECTION 817 FIG. 4. Analysis...”
- Adaptation of group A Streptococcus to human amniotic fluid
Sitkiewicz, PloS one 2010 - “...- 2.35 Arginine-binding protein M28_Spy1176 SPy1506 artP 2.95 2.12 2.07 Arginine transport ATP-binding protein M28_Spy1177 SPy1507 artQ 2.50 2.08 Arginine transport system permease protein M28_Spy1208 SPy1541 arcC 8.01 877.27 Carbamate kinase M28_Spy1209 SPy1542 - 199.49 Xaa-His dipeptidase M28_Spy1210 SPy1543 - 2.55 191.92 Arginine ornithine antiporter M28_Spy1211...”
A9497_04150, AKL23_RS07760 amino acid ABC transporter permease from Streptococcus thermophilus
29% identity, 89% coverage
- Technological and Genomic Analysis of Roles of the Cell-Envelope Protease PrtS in Yoghurt Starter Development
Tian, International journal of molecular sciences 2018 - “...ATP-binding 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...”
- “...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 Transporter A9497_02760 A9497_03620...”
FPV33_RS17195 glutamine ABC transporter permease GlnP from Klebsiella aerogenes
29% identity, 94% coverage
- Transcriptomic analysis of nitrogen metabolism pathways in Klebsiella aerogenes under nitrogen-rich conditions
Chen, Frontiers in microbiology 2024 - “...N(5)-glutamine methyltransferase 2.31 FPV33_RS05015 pyrG CTP synthase (glutamine hydrolyzing) 1.48 FPV33_RS17865 glnS Glutamine--tRNA ligase 1.48 FPV33_RS17195 glnP Glutamine ABC transporter permease GlnP 1.83 FPV33_RS17200 glnQ Glutamine ABC transporter ATP-binding protein GlnQ 1.72 FPV33_RS02860 GATase1 Type 1 glutamine amidotransferase 1.42 FPV33_RS21860 FmdA_AmdA Acetamidase/formamidase family protein 1.63 FPV33_RS14025...”
A7MEY8 ABC transmembrane type-1 domain-containing protein from Cronobacter sakazakii (strain ATCC BAA-894)
30% identity, 93% coverage
A7P62_RS10725 glutamine ABC transporter permease GlnP from Pantoea agglomerans pv. gypsophilae
31% identity, 93% coverage
CKC_03670 amino acid ABC transporter permease from Candidatus Liberibacter solanacearum CLso-ZC1
27% identity, 86% coverage
DVU2341 amino acid ABC transproter, permease protein, His/Glu/Gln/Arg/opine family from Desulfovibrio vulgaris Hildenborough
31% identity, 87% coverage
- Characterization of NaCl tolerance in Desulfovibrio vulgaris Hildenborough through experimental evolution
Zhou, The ISME journal 2013 - “...synthase, iron- sulfur cluster-binding subunit, putative DVU2341 Amino-acid ABC transproter, permease protein, His/Glu/ Gln/Arg/opine family DVU2342 Amino-acid...”
- Global transcriptional, physiological, and metabolite analyses of the responses of Desulfovibrio vulgaris hildenborough to salt adaptation
He, Applied and environmental microbiology 2010 - “...transport DVU0724 DVU2297 NA proW DVU2298 opuBB DVU2299 proV DVU2341 NA DVU2740 livF DVU2741 livG DVU2742 livM DVU2743 livH DVU2744 NA DVU3297 mtr a Sodium/Ala...”
- “...shock conditions. For example, the expression of DVU0724, DVU2341, and mtr increased during salt adaptation but did not change under salt shock conditions...”
SAG0291 amino acid ABC transporter, permease protein from Streptococcus agalactiae 2603V/R
28% identity, 81% coverage
EF0806 amino acid ABC transporter, permease protein from Enterococcus faecalis V583
30% identity, 93% coverage
SSU05_0550 amino acid (glutamine) ABC transporter, permease protein from Streptococcus suis 05ZYH33
ZY05719_02690 amino acid ABC transporter permease from Streptococcus suis
29% identity, 93% coverage
Psyr_3909 Amino acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine from Pseudomonas syringae pv. syringae B728a
28% identity, 86% coverage
M28_Spy1177 arginine transport system permease protein from Streptococcus pyogenes MGAS6180
28% identity, 97% coverage
- Adaptation of group A Streptococcus to human amniotic fluid
Sitkiewicz, PloS one 2010 - “...SPy0778 - 2.35 Arginine-binding protein M28_Spy1176 SPy1506 artP 2.95 2.12 2.07 Arginine transport ATP-binding protein M28_Spy1177 SPy1507 artQ 2.50 2.08 Arginine transport system permease protein M28_Spy1208 SPy1541 arcC 8.01 877.27 Carbamate kinase M28_Spy1209 SPy1542 - 199.49 Xaa-His dipeptidase M28_Spy1210 SPy1543 - 2.55 191.92 Arginine ornithine antiporter...”
HVX45_RS09410 amino acid ABC transporter permease/ATP-binding protein from Escherichia fergusonii
29% identity, 42% coverage
- OrthoRefine: automated enhancement of prior ortholog identification via synteny
Ludwig, BMC bioinformatics 2024 - “...E . coli genes (b0652, b3271, b4106, & b4096), fives genes from E . fergusonii (HVX45_RS09410, HVX45_RS02390, HVX45_RS04025, HVX45_RS07420, & HVX45_RS11505), two genes from E . marmotae (GV529_RS14465 & GV529_RS05870), and one gene from E . albertii (JRC41_RS15115). Most of the genes were annotated as encoding...”
- “...SOG19.1 which consisted of b3271, HVX45_RS11505, & GV529_RS14465, while excluding b4106, b4096, HVX45_RS02390, HVX45_RS04205, & HVX45_RS09410 as presumed paralogs (Fig. 4 ). The BLAST e-values and percent identity from OrthoFinders alignment supported the presence of these two natural subgroups in HOG19 (Additional file 2 : Table...”
SSA_1569 ABC transporter membrane-spanning permease, arginine/histidine transport, putative from Streptococcus sanguinis SK36
31% identity, 93% coverage
- ciaR impacts biofilm formation by regulating an arginine biosynthesis pathway in Streptococcus sanguinis SK36
Zhu, Scientific reports 2017 - “...argC , argG , argH and argJ ) and two arginine/histidine permease genes (SSA_1568 and SSA_1569) were upregulated in ciaR . In contrast to ciaR , most of strains constructed to contain deletions in each of these genes produced more biofilm and water-insoluble glucan than SK36....”
- “...argC , argG , argH and argJ ) and two arginine/histidine permease genes (SSA_1568 and SSA_1569) was significantly increased in ciaR (Fig. 3C ). ciaR reduces biofilm formation by activating the arginine biosynthesis pathway To further test the hypothesis, eight double mutants ( ciaR combined with...”
- Involvement of signal peptidase I in Streptococcus sanguinis biofilm formation
Aynapudi, Microbiology (Reading, England) 2017 - “...protein Yes SSA_0621 1.592 6.52E-14 SOS responce UmuC protein No SSA_0614 1.595 2.34E-09 Transporter No SSA_1569 1.603 9.98E-11 Arginine/histidine ABC transporter permease No SSA_1568 1.615 2.63E-14 Arginine/histidine ABC transporter permease No SSA_2096 2.016 8.18E-13 ATP-dependent protease, ATP- binding subunit No *Values are SSA _0351:SK36. Cutoff for...”
Cj0940c putative glutamine transport system permease from Campylobacter jejuni subsp. jejuni NCTC 11168
31% identity, 82% coverage
- Hyperosmotic stress response of Campylobacter jejuni
Cameron, Journal of bacteriology 2012 - “...permease kdpB peb1B glnP cj0560 cj0677 cj0921c cj0940c 2.2 2.1 2.2 Surface, polysaccharides, antigens Putative periplasmic protein Major antigenic peptide PEB2...”
- Atypical roles for Campylobacter jejuni amino acid ATP binding cassette transporter components PaqP and PaqQ in bacterial stress tolerance and pathogen-host cell dynamics
Lin, Infection and immunity 2009 - “...jejuni proteins that were previously annotated as GlnP (Cj0940c) and GlnQ (Cj0902) based on slightly higher initial BLAST search homologies (37.5% identity to...”
- “...observations). This is supported by the previous annotation of cj0940c and cj0902 as glnP and glnQ, which, like paqP and paqQ, are present in all sequenced...”
- Explorative multifactor approach for investigating global survival mechanisms of Campylobacter jejuni under environmental conditions
Moen, Applied and environmental microbiology 2005 - “...Cj0820c, fliP; Cj0883c, hypothetical protein Cj0883c gene; Cj0940c, glnP; Cj0952c, putative membrane protein gene; Cj1030c, lepA; Cj1148, waaF; Cj1150c, waaE;...”
LPL9_RS10370 amino acid ABC transporter permease from Lacticaseibacillus paracasei
28% identity, 92% coverage
TC 3.A.1.3.5 / P35114 OCM1 aka OccM, component of Octopine porter from Agrobacterium tumefaciens (see 2 papers)
30% identity, 81% coverage
PSPPH_2462 glutamine ABC transporter, permease protein from Pseudomonas syringae pv. phaseolicola 1448A
28% identity, 94% coverage
BC0401 Cystine transport system permease protein from Bacillus cereus ATCC 14579
28% identity, 92% coverage
B1745_05190 amino acid ABC transporter permease from Lactobacillus amylolyticus
29% identity, 92% coverage
- Adaptive mechanism of Lactobacillus amylolyticus L6 in soymilk environment based on metabolism of nutrients and related gene-expression profiles
Fei, Food science & nutrition 2022 - “...ATPdependent Clp protease ATPbinding protein ClpC 1.63 B1745_04890 transcriptional activator, Rgg/GadR/MutR family domaincontaining protein 1.60 B1745_05190 glnM glutamine ABC transporter permease 1.60 B1745_02545 pepX dipeptidylpeptidase 1.56 B1745_02045 dacD DalanylDalanine carboxypeptidase 1.44 B1745_06875 amino acid permease 1.44 B1745_00945 oppD peptide ABC transporter ATPbinding protein 1.43 B1745_RS07280 lysC...”
- “...transporters to supplement amino acid. A glutamate transporter operon (glnQHMP, glnP , B1745_05185; glnM , B1745_05190; glnH , B1745_05195; glnH , B1745_05195) was highly induced in the logarithmic phase to transport the high concentration of free glutamate from the soymilk into the cell (Table 2 and...”
MAB_0277c Probable amino acid ABC transporter, permease from Mycobacterium abscessus ATCC 19977
32% identity, 45% coverage
Q03PN3 ABC-type amino acid transport system, permease component from Levilactobacillus brevis (strain ATCC 367 / BCRC 12310 / CIP 105137 / JCM 1170 / LMG 11437 / NCIMB 947 / NCTC 947)
29% identity, 96% coverage
MSMEG_6909 amino acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family protein from Mycobacterium smegmatis str. MC2 155
31% identity, 37% coverage
Dde_1386 Amino acid ABC transporter, permease protein from Desulfovibrio desulfuricans G20
28% identity, 63% coverage
BCAL1056 histidine transport system permease protein from Burkholderia cenocepacia J2315
31% identity, 89% coverage
BURMUCGD2M_3193 glutamate/aspartate ABC transporter, permease protein GltK from Burkholderia multivorans CGD2M
31% identity, 92% coverage
SMU_567 amino acid ABC transporter permease from Streptococcus mutans UA159
29% identity, 97% coverage
- Cnm of Streptococcus mutans is important for cell surface structure and membrane permeability
Naka, Frontiers in cellular and infection microbiology 2022 - “...ATP-binding protein 1028319 SMU_973 2.272 glnQ Amino acid ABC transporter ATP-binding protein 1028758 SMU_1519 2.233 SMU_567 Glutamine ABC transporter permease 1029364 SMU_567 2.125 SMU_1078c ABC transporter ATP-binding protein 1028403 SMU_1078c 2.039 adcB ABC transporter zinc permease 1029187 SMU_1993 2.014 SMU_2035 Bacteriocin immunity protein 1029223 SMU_2035 2.007...”
GBAA4375 amino acid ABC transporter, permease protein from Bacillus anthracis str. 'Ames Ancestor'
30% identity, 92% coverage
TC 3.A.1.3.12 / P73544 BgtB aka GLNH aka SLL1270, component of Arginine/lysine/histidine/glutamine porter (see paper)
sll1270 glutamine-binding periplasmic protein/glutamine transport system permease protein from Synechocystis sp. PCC 6803
33% identity, 36% coverage
- substrates: Arginine, Glutamine, Histidine, lysine
- Deciphering the genetic landscape of enhanced poly-3-hydroxybutyrate production in Synechocystis sp. B12
Santin, Biotechnology for biofuels and bioproducts 2024 - “...Additional file 1 : Fig. S3A), as well as putative amino acid transporters slr1735 , sll1270 and slr0360 (Additional file 1 : Fig. S3A), inferred by sequence homology, which are often used by organisms as an alternative route to take up N from the external environment...”
- Site-2 Protease Slr1821 Regulates Carbon/Nitrogen Homeostasis during Ammonium Stress Acclimation in Cyanobacterium Synechocystis sp. PCC 6803
Lin, International journal of molecular sciences 2023 - “..., slr1200 , slr1201 ), nitrate/nitrite ( nrtABCD/sll1450-53 ), arginine and glutamine ( bgtB / sll1270 ) were consistently suppressed two to twenty folds, thus implying the effective attenuation of excess nitrogen influx. Similar with the suppression of four nitrate/nitrite transporter subunits ( sll1450-53 ), the...”
- Impact of RNase E and RNase J on Global mRNA Metabolism in the Cyanobacterium Synechocystis PCC6803
Cavaiuolo, Frontiers in microbiology 2020 - “...identified in Houot et al. (2007) and corresponding to slr0737 , sll0427 , slr1756 , sll1270 , slr1200 , sll0108 , sll1196 , and slr0772 were down-regulated in our analysis ( Supplementary Tables S2 , S3 ). A decrease in abundance of certain mRNAs could also...”
- Identification of the direct regulon of NtcA during early acclimation to nitrogen starvation in the cyanobacterium Synechocystis sp. PCC 6803
Giner-Lamia, Nucleic acids research 2017 - “...gdhA glutamate dehydrogenase (NADP+) 0.93 2.1E-03 slr1735 bgtA Component of ABC-type Bgt permease 1.27 1.8E-05 sll1270 bgtB Component of ABC-type Bgt permease 4.19 7.0E-81 Ammonium asimilation sll0108 amt1 ammonium/methylammonium permease 5.32 2.8E-216 sll1017 amt2 ammonium/methylammonium permease 4.12 2.7E-15 Urea assimilation slr0447 urtA Component of ABC-type urea...”
- “...5.141 unknown protein 2390100c N slr0288 glnN 2128602 2128851 promoter 4.643 glutamateammonium ligase 2128736 N sll1270 bgtB 1115933 1116332 promoter 4.195 periplasmic substrate-binding and integral membrane protein of the ABC-type Bgt permease 1116162c N sll1017 amt2 401952 402201 promoter 4.123 ammonium/methylammonium permease 402151 N sll0944 2267152...”
- Proteomic and metabolomic analyses reveal metabolic responses to 3-hydroxypropionic acid synthesized internally in cyanobacterium Synechocystis sp. PCC 6803
Wang, Biotechnology for biofuels 2016 - “...strain, 11 transporters were found up-regulated, including Slr1247, Sll0540, Sll0679, Sll0680, Sll1598, Sll0385, Sll1699, Sll0374, Sll1270, Slr0559 and Slr1201. Phosphorus is necessary to the ATP and NADPH synthesis, and in Synechocystis transporters with three associated Pi-binding proteins (PBPs) have been identified, they are PstS1 (Sll0680), PstS2...”
- “...protein Sll0374, urea transport system permease protein Slr1201, arginine/lysine/histidine/glutamine transport system substrate-binding and permease protein Sll1270 and neutral amino acid transport system substrate-binding protein Slr0559 were also up-regulated, although their roles in metabolic responses to 3-HP synthesis is yet to be established. Cofactors and amino acid...”
- RNA-Seq analysis provides insights for understanding photoautotrophic polyhydroxyalkanoate production in recombinant Synechocystis Sp
Lau, PloS one 2014 - “...301.33 395.05 DNA-binding slr1318 iron(III) dicitrate ABC transporter permease 3.5 4.18 19.17 67.18 80.06 transport sll1270 glutamine ABC transporter 2.52 4.15 91.4 230.36 379.34 amino acid transport sll1405 biopolymer transport protein 2.25 4.02 15.07 33.95 60.53 protein transport slr1693 PatA subfamily protein 3.2 4.02 55.32 177.23...”
- Global transcriptional profiles of the copper responses in the cyanobacterium Synechocystis sp. PCC 6803
Giner-Lamia, PloS one 2014 - “...nitric oxide reductase Transport and binding proteins sll0064 0.18 Putative polar amino acid transport system sll1270 bgtB 0.29 ABC-type Bgt permease for basic amino acids and glutamine slr0415 napA 0.29 Na+/H+ antiporter slr0369 envD 0.28 RND multidrug efflux transporter slr0875 mscL 0.25 Large-conductance mechanosensitive channel slr0096...”
- Global proteomics reveal an atypical strategy for carbon/nitrogen assimilation by a cyanobacterium under diverse environmental perturbations
Wegener, Molecular & cellular proteomics : MCP 2010 - “...up-regulated by fourfold under most conditions. Similarly, BgtB (Sll1270), and to some extent BgtA (Slr1735), the periplasmic and ATP-binding components of an...”
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VPA0639 arginine ABC transporter, permease protein from Vibrio parahaemolyticus RIMD 2210633
31% identity, 92% coverage
- Quorum Sensing Regulators Are Required for Metabolic Fitness in Vibrio parahaemolyticus
Kalburge, Infection and immunity 2017 - “...(VP2756 to VP2760) and transport (VPA0637 to VPA0639) (Fig. S4A), phenylalanine/tyrosine biosynthesis (VP0546 to VP0547 and VP0555), and histidine biosynthesis...”
- Transcriptome analysis of Vibrio parahaemolyticus in type III secretion system 1 inducing conditions
Nydam, Frontiers in cellular and infection microbiology 2014 - “...COG4974L 2.0 4.8 6.7 11.6 15.1 vpa0035 Sodium/glutamate symporter COG0786E 7.0 1.3 1.7 3.0 3.5 vpa0639 Arginine transporter permease subunit ArtM COG4160E 40.5 90.1 113.9 124.2 57.8 vpa0669 Hypothetical protein 2.0 4.1 6.2 10.1 12.4 vpa0680 Arylsulfatase COG3119P 6.9 18.4 25.9 40.5 59.9 vpa0694 Hypothetical protein...”
- “...) (Xu et al., 2006 ). A gene encoding arginine transporter permease subunit ArtM ( vpa0639 ) was also upregulated, and has been shown to be a component of a complex that mediates arginine binding and uptake in other organisms (Wissenbach et al., 1993 , 1995...”
SSA_2099 ABC-type arginine/histidine transporter, permease protein, putative from Streptococcus sanguinis SK36
32% identity, 76% coverage
SP_1502 amino acid ABC transporter, permease protein from Streptococcus pneumoniae TIGR4
SPD_1330 amino acid ABC transporter, permease protein from Streptococcus pneumoniae D39
31% identity, 93% coverage
- Phenotypic, genomic, and transcriptional characterization of Streptococcus pneumoniae interacting with human pharyngeal cells
Kimaro, BMC genomics 2013 - “...section and include: adhesins ( rlr islet and glycosylated proteins), transporters (sodium SP_0737, amino acid SP_1502), fatty acid metabolism genes and several hypothetical proteins. Genes that code for hypothetical proteins were the most highly represented. These results provide a novel approach to the analysis of genes...”
- Genome-wide identification of Streptococcus pneumoniae genes essential for bacterial replication during experimental meningitis
Molzen, Infection and immunity 2011 - “...livG SP_0753 livF SP_0823 SP_0826 SP_1062 SP_1063 SP_1069 SP_1502 SP_2198 SP_2231 a ns b , not significant; NA, not available. MFS, major facilitator...”
- 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 - “...and D39 locus tag spd_1264 spd_1265 spd_1267 spd_1330 spd_1488 spd_1489 spd_1490 spd_1491 spd_1492 spd_1493 spd_1494 spd_1495 spd_1496 spd_1497 spd_1504...”
NTHI1345 arginine transporter permease subunit ArtM from Haemophilus influenzae 86-028NP
33% identity, 77% coverage
GlnP / b0810 L-glutamine ABC transporter membrane subunit (EC 7.4.2.1) from Escherichia coli K-12 substr. MG1655 (see 2 papers)
GlnP / P0AEQ6 L-glutamine ABC transporter membrane subunit (EC 7.4.2.1) from Escherichia coli (strain K12) (see 2 papers)
TC 3.A.1.3.2 / P0AEQ6 Glutamine transport system permease protein GlnP aka B0810, 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 5 papers)
Z1032 glutamine high-affinity transport system; membrane component from Escherichia coli O157:H7 EDL933
ECs0888 membrane component of glutamine high-affinity transport system from Escherichia coli O157:H7 str. Sakai
32% identity, 75% coverage
lmo1740 similar to amino acid (glutamine) ABC transporter, permease protein from Listeria monocytogenes EGD-e
28% identity, 93% coverage
- Antibacterial Efficacy and Mechanism of Mannosylerythritol Lipids-A on Listeria monocytogenes
Liu, Molecules (Basel, Switzerland) 2020 - “...stress caused by MEL-A [ 31 ]. The expression of genes involved in localization (lmo2124, lmo1740, etc.), transport (lmo2124, lmo2123, lmo2347, etc.) and the establishment of localization were downregulated ( Figure 6 B). These genes are mainly predicted to be related to the transport of sugar...”
- Acid shock of Listeria monocytogenes at low environmental temperatures induces prfA, epithelial cell invasion, and lethality towards Caenorhabditis elegans
Neuhaus, BMC genomics 2013 - “...genes encoding the following predicted functions: a transcriptional regulator (lmo0109), glutamine ABC transporter (lmo0847 and lmo1740), a subunit of a sugar ABC transporter (lmo1389), the IIA component of a mannose-specific phosphotransferase system (PTS, lmo1997), a protein similar to glutamate decarboxylases (lmo2434), and a stress protein (lmo2784)....”
- “...selected for microarray validation by qRT-PCR: prfA , hly , flhB, cheA , lmo0109, lmo0847, lmo1740, rsbR , lmo1389, lmo1997, lmo2434, and lmo2784 (see Additional file 3 for more functional details). The validated genes checked at various time points () displayed a significant correlation (level of...”
- Listeria monocytogenes differential transcriptome analysis reveals temperature-dependent Agr regulation and suggests overlaps with other regulons
Garmyn, PloS one 2012 - “...genes and most are 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...”
- Pyruvate carboxylase plays a crucial role in carbon metabolism of extra- and intracellularly replicating Listeria monocytogenes
Schär, Journal of bacteriology 2010 - “...by the gene products of lmo0847 and lmo1740, encoding putative GltK-homologous ABC transporters for glutamate/aspartate. Nevertheless, even an excess of...”
- An in silico analysis of T-box regulated genes and T-box evolution in prokaryotes, with emphasis on prediction of substrate specificity of transporters
Wels, BMC genomics 2008 - “...synthase) Lactobacillus plantarum WCFS1 lp_3283 Met 5-methyltetrahydropteroyltriglutamate homocysteine methyltransferase (Methionine synthase) Listeria sp . 1 lmo1740 His Histidine transport system permease protein hisM lmo2587 Met Met related cytosolic hypothetical Staphylococcus aureus 2 SA0347 Met Cystathionine gamma-synthase SA1199 Trp Anthranilate synthase component I Streptococcus agalactiae 3 SAG0809...”
HSISS4_00832 amino acid ABC transporter permease from Streptococcus salivarius
29% identity, 92% coverage
Dde_3071 Amino acid ABC transporter, permease protein from Desulfovibrio desulfuricans G20
Dde_3071 amino acid ABC transporter permease from Oleidesulfovibrio alaskensis G20
30% identity, 72% coverage
mru_1776 amino acid ABC transporter permease protein from Methanobrevibacter ruminantium M1
29% identity, 91% coverage
MMP0551 Binding-protein-dependent transport systems inner membrane component from Methanococcus maripaludis S2
28% identity, 92% coverage
STM0829 ABC superfamily (membrane), glutamine high-affinity transporter from Salmonella typhimurium LT2
31% identity, 75% coverage
TC 3.A.1.3.23 / Q9HU29 Amino acid (Lysine/arginine/ornithine/histidine/octopine) ABC transporter membrane 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)
PA5155 probable permease of ABC transporter from Pseudomonas aeruginosa PAO1
31% identity, 91% coverage
- substrates: Alanine, Arginine, Histidine, Valine, lysine
- Network analysis for identifying potential anti-virulence targets from whole transcriptome of Pseudomonas aeruginosa and Staphylococcus aureus exposed to certain anti-pathogenic polyherbal formulations
Ruparel, Drug target insights 2023 - “...2.25 0.006 70 PA0522 Hypothetical protein 2.25 0.01 71 PA0952 Hypothetical protein 2.20 7.23E-05 72 PA5155 Polar amino acid transport system permease protein 2.20 0.01 73 PA0830 Hypothetical protein 2.19 2.18E-14 74 PA1093 Flagellar protein FlaG 2.19 0.008551 75 PA4064 Putative ABC transport system ATP-binding protein...”
- L-lysine catabolism is controlled by L-arginine and ArgR in Pseudomonas aeruginosa PAO1
Chou, Journal of bacteriology 2010 - “...L-arginine were also increased (aotJQMP and PA5152 to PA5155). Interestingly, counterparts of these two systems in P. putida KT2440 have been reported as...”
- “...76%, respectively) with P. aeruginosa PA5152 to PA5155 and aotJQMP-argR loci. Together with LdcB, a candidate lysine/cadaverine antiporter, all three candidate...”
- High-throughput phenotypic characterization of Pseudomonas aeruginosa membrane transport genes
Johnson, PLoS genetics 2008 - “...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 membrane protein PA5170 PAK arginine/ornithine APC family antiporter ( ArcD ) PA5504 PA01 D-methionine ABC transporter membrane protein PA5510 PAK amino acid APC family...”
- “...D-Valine N +/ PA5153 amino acid (lysine/arginine/ornithine/histidine/octopine) ABC transporter periplasmic binding protein L-Ornithine C +/ PA5155 amino acid (lysine/arginine/ornithine/histidine/octopine) ABC transporter membrane protein L-Ornithine C - PA5504 D-methionine ABC transporter membrane protein L-Histidine C +/ a Knockout mutants with a significant reduction in substrate utilization as...”
- Screening for quorum-sensing inhibitors (QSI) by use of a novel genetic system, the QSI selector
Rasmussen, Journal of bacteriology 2005 - “...PA4980 PA5034 PA5061 PA5093 PA5096 PA5098 PA5099 PA5100 PA5155 PA5171 PA5172 PA5173 PA5212 PA5235 PA5297 PA5352 PA5383 PA5457 PA5460 PA5468 PA5481 PA5482 PA5503...”
- Transcriptome analysis of the ArgR regulon in Pseudomonas aeruginosa
Lu, Journal of bacteriology 2004 - “...PA1819 PA1971 PA2042 PA3068 PA3934 PA5152 PA5153 PA5154 PA5155 PA5170 PA5171 PA5172 PA5173 PA3525 PA3537 PA3538 PA4588 PA4756 PA4757 PA4758 PA5035 PA5036 Gene...”
- Adaptive divergence in experimental populations of Pseudomonas fluorescens. I. Genetic and phenotypic bases of wrinkly spreader fitness
Spiers, Genetics 2002 - “...and the gene upstream of this is 65% identical to PA5155 and 47% identical to the membrane protein component AotM. Between wssJ and aotM is an 1-kb stretch of...”
Fisuc_2772 polar amino acid ABC transporter, inner membrane subunit from Fibrobacter succinogenes subsp. succinogenes S85
28% identity, 44% 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
29% identity, 42% 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...”
MAV_0059 amino acid ABC transporter, permease protein, His/Glu/Gln/Arg/opine family protein from Mycobacterium avium 104
33% identity, 34% coverage
Spaf_0379 amino acid ABC transporter permease from Streptococcus parasanguinis FW213
33% identity, 91% coverage
pRL80064 putative permease component of ABC transporter from Rhizobium leguminosarum bv. viciae 3841
29% identity, 69% coverage
- Adaptation of Rhizobium leguminosarum to pea, alfalfa and sugar beet rhizospheres investigated by comparative transcriptomics
Ramachandran, Genome biology 2011 - “...RL2418 (MtlE); CUT2, RL4655 (IntA), RL3840 and RL2720; PepT, pRL110281 and pRL110243; PAAT, pRL80060 and pRL80064; POPT, pRL100248; NitT, RL3721. Asterisks indicate a compound metabolized by an enzyme whose expression is elevated (Figure 2) or, in the case of Nod factor, synthesized for export (Figure 3)....”
A9497_03405 ABC transporter substrate-binding protein/permease from Streptococcus thermophilus
30% identity, 27% 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...”
A9497_09175, AKL23_RS03035 amino acid ABC transporter permease from Streptococcus thermophilus
30% identity, 93% coverage
- Technological and Genomic Analysis of Roles of the Cell-Envelope Protease PrtS in Yoghurt Starter Development
Tian, International journal of molecular sciences 2018 - “...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_07640 AKL23_RS01510 ABC transporter permease Polar amino acid A9497_03800...”
- “...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_07640 AKL23_RS01510 ABC transporter permease Polar amino acid A9497_03800 AKL23_RS07410 ABC transporter...”
HSISS4_01405 ABC transporter substrate-binding protein/permease from Streptococcus salivarius
30% identity, 27% coverage
BTH_I1772 amino acid ABC transporter, permease protein from Burkholderia thailandensis E264
30% identity, 89% coverage
N646_4485 arginine ABC transporter permease ArtM from Vibrio alginolyticus NBRC 15630 = ATCC 17749
32% identity, 92% coverage
YE0802 ABC transporter, inner-membrane component from Yersinia enterocolitica subsp. enterocolitica 8081
28% identity, 98% coverage
GLNP_BACSU / O34606 Probable glutamine ABC transporter permease protein GlnP from Bacillus subtilis (strain 168) (see paper)
31% identity, 96% coverage
- function: Part of the ABC transporter complex GlnHMPQ involved in glutamine transport. Probably responsible for the translocation of the substrate across the membrane (By similarity).
subunit: The complex is composed of two ATP-binding proteins (GlnQ), two transmembrane proteins (GlnM and GlnP) and a solute-binding protein (GlnH).
Msm_0806 polar amino acid ABC transporter, permease component from Methanobrevibacter smithii ATCC 35061
28% identity, 79% coverage
A9497_01800 amino acid ABC transporter permease from Streptococcus thermophilus
30% identity, 91% coverage
- Technological and Genomic Analysis of Roles of the Cell-Envelope Protease PrtS in Yoghurt Starter Development
Tian, International journal of molecular sciences 2018 - “...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_07640 AKL23_RS01510 ABC transporter permease Polar amino acid...”
AO356_09910 ABC transporter for L-Lysine, permease component 2 from Pseudomonas fluorescens FW300-N2C3
31% identity, 91% coverage
- mutant phenotype: Specific phenotype on L-Lysine. Note that this organism has a second ABC transporter operon that is also important for lysine utilization, which is not explained.
SMU_934 amino acid ABC transporter permease from Streptococcus mutans UA159
33% identity, 75% coverage
- Cnm of Streptococcus mutans is important for cell surface structure and membrane permeability
Naka, Frontiers in cellular and infection microbiology 2022 - “...1028343 SMU_1005 3.395 ABC transporter-related genes Gene name Description NCBI Gene ID Locus Tag Fold-change SMU_934 Amino acid ABC transporter permease 1029516 SMU_934 49.079 SMU_936 Amino acid ABC transporter ATP-binding protein 1028285 SMU_936 46.026 SMU_935 Amino acid ABC transporter permease 1028288 SMU_935 45.114 SMU_933 Amino acid...”
- Genomic and phenotypic characterization of Streptococcus mutans isolates suggests key gene clusters in regulating its interaction with Streptococcus gordonii
Liu, Frontiers in microbiology 2022 - “...mutans ( Hale et al., 2005 ). The antiSMASH also predicted 11 genes (SMU_922, SMU_923, SMU_934, SMU_935, SMU_936, SMU_1315c, SMU_1325, SMU_1338c, SMU_1348c, SMU_1366c, SMU_1506c) belonged to transport-related genes. To fully explore genes that may play a role in regulating the activity of S. mutans against S....”
- Understanding the Streptococcus mutans Cid/Lrg System through CidB Function
Ahn, Applied and environmental microbiology 2016 - “...Possible bacteriocin Amino acid ABC transporters SMU_932 SMU_933 SMU_934 SMU_935 SMU_936 1.43 1.41 1.48 1.52 1.45 NA atmA NA NA NA Conserved hypothetical...”
BAU10_20520 arginine ABC transporter permease ArtM from Vibrio alginolyticus
32% identity, 92% coverage
PP0280 amino acid ABC transporter, permease protein from Pseudomonas putida KT2440
31% identity, 91% coverage
SO1043 amino acid ABC transporter, permease protein from Shewanella oneidensis MR-1
SO_1043 amino acid ABC transporter permease from Shewanella oneidensis MR-1
31% identity, 93% coverage
NH16_RS09120 amino acid ABC transporter permease from Leuconostoc mesenteroides subsp. dextranicum
29% identity, 90% coverage
- Cell-Wall-Degrading Enzymes-Related Genes Originating from Rhizoctonia solani Increase Sugar Beet Root Damage in the Presence of Leuconostoc mesenteroides
Majumdar, International journal of molecular sciences 2022 - “...downregulated (>2-fold) in the presence of R. solani include amino acid ABC transporter permease ( NH16_RS09120 ), D-alanyl-lipoteichoic acid biosynthesis protein dltD ( NH16_RS02465 ), and nicotinate phosphoribosyltransferase ( NH16_RS01415 ). Some of the highly expressed (FPKM~1400-3000) genes at 2 dpi include translation initiation factor IF-1...”
- “...2102.11 NH16_RS00480 30S ribosome-binding factor RbfA 938.09 2283.04 NH16_RS04555 50S ribosomal protein L15 901.01 2378.87 NH16_RS09120 amino acid ABC transporter permease 830.57 0.00 NH16_RS00875 branched-chain amino acid transport system II carrier protein 812.68 736.23 NH16_RS02465 D-alanyl-lipoteichoic acid biosynthesis protein dltD 196.43 79.37 NH16_RS01415 nicotinate phosphoribosyltransferase 171.19...”
SAG0947 amino acid ABC transporter, permease protein from Streptococcus agalactiae 2603V/R
30% identity, 93% coverage
- Adaptive response of Group B streptococcus to high glucose conditions: new insights on the CovRS regulation network
Di, PloS one 2013 - “..., coding for a putative peptide/proton symporter [28] ; a putative histidine ABC transporter ( sag0947 to sag0949 ); a spermidine-putrescine transporter, potABCD ( sag1108 to sag1111 ), implicated in the pathogenesis of Streptococcus pneumoniae [29] ; the sag0290 to sag0292 operon (regulated up to 8-fold),...”
- “...transporter; the sag1145 gene, encoding for the sodium:alanin symporter protein; the sag0715 to sag0718 and sag0947 to sag0949 genes, encoding for amino acid ABC transporters. Furthermore, the transcription of genes encoding an ABC transporter specific for glycine betaine ( sag0241 to sag0244 ), whose accumulation in...”
- CsrRS regulates group B Streptococcus virulence gene expression in response to environmental pH: a new perspective on vaccine development
Santi, Journal of bacteriology 2009 - “...AtmBDE (53); a putative histidine ABC transporter (SAG0947 to SAG0949); a spermidine-putrescine transporter, PotABCD (SAG1108 to SAG1111); and the highly...”
GALLO_0415 putative amino acid ABC transporter permease protein from Streptococcus gallolyticus UCN34
30% identity, 70% coverage
AKL23_RS05345 amino acid ABC transporter permease from Streptococcus thermophilus
30% identity, 91% coverage
- Technological and Genomic Analysis of Roles of the Cell-Envelope Protease PrtS in Yoghurt Starter Development
Tian, International journal of molecular sciences 2018 - “...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_07640 AKL23_RS01510 ABC transporter permease Polar amino acid A9497_03800 AKL23_RS07410 ABC...”
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