Family Search for PF12010 (DUF3502)

PF12010 hits 16 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

FAY30_22440 ABC transporter substrate-binding protein from Bacillus sp. S3
Aligns to 352:482 / 485 (27.0%), covers 99.2% of PF12010, 155.2 bits

• Complete genome sequencing and comparative genomic analyses of Bacillus sp. S3, a novel hyper Sb(III)-oxidizing bacterium
  Li, BMC microbiology 2020
  • “...translocation P-type ATPase FAY30_11165 FAY30_16840 copZ_12 Copper chaperone FAY30_05265 cutC Copper homeostasis protein Chromate detoxification FAY30_22440 chrR Chromate reductase FAY30_11465 FAY30_20185 FAY30_20190 chrA_123 Chromate transport protein Cadmium, zinc, cobalt, mercury detoxification FAY30_09760 cadC Cadmium resistance transcriptional regulatory protein FAY30_09765 cadA Putative cadmium-transporting ATPase FAY30_21075 zupT Zinc...”

CPE1030 conserved hypothetical protein (NCBI ptt file) from Clostridium perfringens str. 13
Aligns to 351:479 / 482 (26.8%), covers 100.0% of PF12010, 152.4 bits

• Immunoactive Clostridial Membrane Vesicle Production Is Regulated by a Sporulation Factor.
  Obana, Infection and immunity 2017
  • “...putative lipoproteins (33). We also identified 2 putative lipoproteins (CPE1030 and MalE) in the MV fraction, and these proteins accumulated more in MV than in...”

lmo2007 weakly similar to putative sugar-binding lipoproteins (NCBI ptt file) from Listeria monocytogenes EGD-e
Aligns to 352:482 / 485 (27.0%), covers 100.0% of PF12010, 149.8 bits

• Pyruvate carboxylase plays a crucial role in carbon metabolism of extra- and intracellularly replicating Listeria monocytogenes
  Schär, Journal of bacteriology 2010
  • “...lmo1954 (drm) lmo1955b lmo1970 lmo1972 lmo1974 lmo1999b lmo2007 lmo2084d Similar to transcriptional regulatory proteins, AraC family Similar to lipase Similar...”
• Glycerol metabolism and PrfA activity in Listeria monocytogenes
  Joseph, Journal of bacteriology 2008
  • “...lmo1997 lmo1998 lmo1999b lmo2000 lmo2001a,b lmo2002 alsS lmo2007 lmo2008 lmo2015 Highly similar to Salmonella enterica PduO protein Similar to ethanolamine...”
• Listeria monocytogenes surface proteins: from genome predictions to function
  Bierne, Microbiology and molecular biology reviews : MMBR 2007
  • “...Lmo1388 Lmo1426 Lmo1671 Lmo1730 Lmo1738 Lmo1847 Lmo1959 Lmo2007 Lmo2125 Lmo2184 Lmo2196 Lmo2349 Lmo2417 Lmo2431 Lmo2499 Lmo2569 Lmo2839 Enzymatic activities...”

CPE2078 conserved hypothetical protein (NCBI ptt file) from Clostridium perfringens str. 13
Aligns to 349:478 / 482 (27.0%), covers 100.0% of PF12010, 145.7 bits

• Changes in the expression of genes encoding type IV pili-associated proteins are seen when Clostridium perfringens is grown in liquid or on surfaces
  Soncini, BMC genomics 2020
  • “...0.0405 nagC Probable transcriptional regulator CPE2077 2.213 0.0405 ugpB ABC-type sugar transport system, periplasmic component CPE2078 3.148 0.0405 ugpE Probable ABC transporter CPE2081 3.132 0.0405 lplB Probable ABC transporter CPE2082 3.087 0.0405 glnQ Probable amino acid ABC transporter CPE2092 2.263 0.0276 Hypothetical protein CPE2100 2.371 0.0276...”

Csac_0681 ABC-type sugar transport system periplasmic component-like protein (RefSeq) from Caldicellulosiruptor saccharolyticus DSM 8903
Aligns to 362:494 / 500 (26.6%), covers 100.0% of PF12010, 145.3 bits

• Use of label-free quantitative proteomics to distinguish the secreted cellulolytic systems of Caldicellulosiruptor bescii and Caldicellulosiruptor obsidiansis
  Lochner, Applied and environmental microbiology 2011
  • “...These EBPs included COB47_0549 (orthologous to Athe_0597 and Csac_0681), which was predicted to transport xyloglucans (49). Due to its high abundance in...”

CPE1257 conserved hypothetical protein (NCBI ptt file) from Clostridium perfringens str. 13
Aligns to 352:480 / 483 (26.7%), covers 100.0% of PF12010, 143.3 bits

• Changes in the expression of genes encoding type IV pili-associated proteins are seen when Clostridium perfringens is grown in liquid or on surfaces
  Soncini, BMC genomics 2020
  • “...CPE1167 4.116 0.0276 pfk 6-phosphofructokinase CPE1185 2.492 0.0276 ugpB ABC-type sugar transport system, periplasmic component CPE1257 5.358 0.0405 eno Enolase CPE1299 2.171 0.0405 galM Aldose 1-epimerase CPE1344 3.795 0.0276 galK Galactokinase CPE1345 3.935 0.0405 galT Galactose-1-phosphate-uridyl transferase CPE1346 5.420 0.0405 ams1 Alpha-mannosidase CPE1415 2.732 0.0276 clpB...”
• RNA-seq analysis of virR and revR mutants of Clostridium perfringens
  Low, BMC genomics 2016
  • “...III domain proteins cpe1875 cpe1875 fibronectin/fucosidase 1.40 1.84 cpe0818 cpe0818 endo-beta-N-acetylglucosaminidase 1.63 2.26 Hypothetical proteins cpe1257 ugpB ABC transporter substrate binding protein 1.47 3.51 cpe0554 cpe0554 camelysin-like protein 2.45 3.25 cpe2262 cpe2262 has a camelysin M73 family peptidase domain 1.46 2.20 cpe2261 cpe2261 hypothetical protein 1.53...”

COB47_0549 ABC transporter substrate-binding protein from Caldicellulosiruptor obsidiansis OB47
Aligns to 362:494 / 500 (26.6%), covers 100.0% of PF12010, 142.0 bits

• Label-free quantitative proteomics for the extremely thermophilic bacterium Caldicellulosiruptor obsidiansis reveal distinct abundance patterns upon growth on cellobiose, crystalline cellulose, and switchgrass
  Lochner, Journal of proteome research 2011 (PubMed)
  • “...attachment. The highly abundant extracellular binding protein COB47_0549 together with the COB47_1616 ATPase might comprise the primary ABC-transport system for...”
• Use of label-free quantitative proteomics to distinguish the secreted cellulolytic systems of Caldicellulosiruptor bescii and Caldicellulosiruptor obsidiansis
  Lochner, Applied and environmental microbiology 2011
  • “...For example, the C. bescii Athe_0597 and C. obsidiansis COB47_0549 EBPs were almost 2 orders of magnitude more abundant than the average of all of the...”
  • “...binding domains, such as the EBPs Athe_0597 (COB47_0549), Athe_1896 (COB47_1704), and COB47_1166; the flagellin domain protein Athe_1664 (COB47_0918); and the...”

LLKF_1608 sugar ABC transporter substrate-binding protein (RefSeq) from Lactococcus lactis subsp. lactis KF147
Aligns to 350:481 / 483 (27.3%), covers 100.0% of PF12010, 139.0 bits

• Genome-scale diversity and niche adaptation analysis of Lactococcus lactis by comparative genome hybridization using multi-strain arrays
  Siezen, Microbial biotechnology 2011
  • “...some strains LLKF_1606 dexB Glucan 1,6alphaglucosidase (EC 3.2.1.70) LLKF_1607 lnbA Lacto N biosidase (EC 3.2.1.140) LLKF_1608 ypcG Sugar ABC transporter, substratebinding protein LLKF_1609 ypcH Sugar ABC transporter, permease protein LLKF_1610 ypdA Sugar ABC transporter, permease protein LLKF_1611 ypdB Alphamannosidase (EC 3.2.1.24) LLKF_1612 ypdC Hypothetical protein LLKF_1613...”

M28_Spy1349 sugar-binding protein (NCBI) from Streptococcus pyogenes MGAS6180
Aligns to 348:478 / 481 (27.2%), covers 100.0% of PF12010, 127.8 bits

• Adaptation of group A Streptococcus to human amniotic fluid
  Sitkiewicz, PloS one 2010
  • “...Cyclodextrin glucanotransferase M28_Spy1047 SPy1304 amyB 2.06 24.86 Neopullulanase M28_Spy1048 SPy1306 malX 37.14 Maltose maltodextrin-binding protein M28_Spy1349 SPy1592 - 42.74 Sugar-binding protein M28_Spy1350 SPy1593 - 13.77 Sugar transport system permease protein M28_Spy1351 SPy1595 - 7.07 Sugar transport system permease protein M28_Spy1354 SPy1599 - 2.17 Beta-glucosidase M28_Spy1438 SPy1704...”

EF2221 ABC transporter, substrate-binding protein (NCBI ptt file) from Enterococcus faecalis V583
Aligns to 355:485 / 488 (26.8%), covers 99.2% of PF12010, 127.4 bits

• Influence of the Alternative Sigma Factor RpoN on Global Gene Expression and Carbon Catabolism in Enterococcus faecalis V583.
  Keffeler, mBio 2021
  • “...36 genes, 27 encode predicted transport proteins, five of which ( ef1234 , ef1397 , ef2221 , ef2234 , and ef2237 ) encode predicted lipoproteins involved in substrate binding associated with ABC transporters. One notable PTS system potentially regulated by the presence of a predicted cre...”
  • “...TT G AAAG CG TTGTCT 0.724 6 36 22 TT G AAAT CG TTTTCT EF2223-21 EF2221 ABC transporter, substrate binding protein 128.09 38 24 AT G AAAA CG CTATTA 1.000 1 EF2222 ABC transporter, permease protein 114.80 38 24 AT G AAAA CG CTATTA 0.996 6...”
• Identification of surface proteins in Enterococcus faecalis V583
  Bøhle, BMC genomics 2011
  • “...f 2-dehydropantoate 2-reductase Cytoplasmic 2 13.1 EF0968 f 50S ribosomal protein L21 Cytoplasmic 2 35.3 EF2221 ABC transporter. substrate-binding protein Lipid anchor SP-II, LSA-CG 2 8.8 EF2224 Four DUF11 repeats Cell wall surface anchor family protein Cell wall, LPxTG, SP-I, MNA-FA 2 1.4 EF2633 f Chaperonin....”
  • “...substrate-binding domains of multi-component ABC transporters for the import of peptides (EF0907, EF3106) or sugars (EF2221, EF2903). Three proteins (EF3041, EF3256, EFA0003) are involved in pheromone-regulated processes that include conjugation [ 31 ], adding to the two cell wall associated proteins involved in these processes that...”

LP_RS15260 ABC transporter substrate-binding protein from Lactiplantibacillus plantarum WCFS1
Aligns to 356:488 / 490 (27.1%), covers 100.0% of PF12010, 121.7 bits

• In Vitro Gut Modeling as a Tool for Adaptive Evolutionary Engineering of Lactiplantibacillus plantarum.
  Isenring, mSystems 2021
  • “...AlaVal N=N A=A x LP_RS08140 HAD_IC family P-type ATPase 3261513 C749T None x x x LP_RS15260 Extracellular solute-binding protein 1286590 A767G IleThr N=N A=P x LP_RS05980 MFS transporter 300072 C995T ThrMet N=N P=A x LP_RS01370 Acetoin ABC transporter permease 332157 G382A AlaThr N=N A=P x x...”

ERH_0228, ERH_RS01215 ABC transporter substrate-binding protein from Erysipelothrix rhusiopathiae str. Fujisawa
Aligns to 349:479 / 481 (27.2%), covers 100.0% of PF12010, 121.2 bits

• Genomic and Immunogenic Protein Diversity of Erysipelothrix rhusiopathiae Isolated From Pigs in Great Britain: Implications for Vaccine Protection
  Forde, Frontiers in microbiology 2020
  • “...196,260200,819 4560 1519 Hu et al., 2017 8 Atsp ABC transporter, extracellular solute-binding protein ERH_RS01215 (ERH_0228) 262,816264,261 1446 481 Hu et al., 2017 9 Neu ( nanH ) Neuraminidase; LPXTG-motif cell wall anchor domain protein ERH_RS01540 (ERH_0299) 331,513335,127 (rev) 3615 1204 Hu et al., 2017 10...”
  • “...(ERH_0165) 196,260200,819 4560 1519 Hu et al., 2017 8 Atsp ABC transporter, extracellular solute-binding protein ERH_RS01215 (ERH_0228) 262,816264,261 1446 481 Hu et al., 2017 9 Neu ( nanH ) Neuraminidase; LPXTG-motif cell wall anchor domain protein ERH_RS01540 (ERH_0299) 331,513335,127 (rev) 3615 1204 Hu et al., 2017...”
• The genome of Erysipelothrix rhusiopathiae, the causative agent of swine erysipelas, reveals new insights into the evolution of firmicutes and the organism's intracellular adaptations
  Ogawa, Journal of bacteriology 2011
  • “...1 (1) 1 (4) ERH_0199, ERH_0226, ERH_0227, ERH_0228, ERH_0413, ERH_0414, ERH_0417, ERH_1083, ERH_1084, ERH_1085, ERH_1244, ERH_1245, ERH_1246, ERH_1523 ERH_0895,...”

5mltA / A0A0H2UMY0 Structural characterization of a carbohydrate substrate bind protein from streptococcus pneumoniae (see paper)
Aligns to 319:452 / 454 (29.5%), covers 100.0% of PF12010, 118.2 bits

• Ligand: zinc ion (5mltA)

SBP92_STRPN / A0A0H2UMY0 Carbohydrate ABC transporter substrate-binding protein; Carbohydrate substrate-binding protein SP0092; Carbohydrate SBP SP0092 from Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4) (see 2 papers)
SPD_0090 ABC transporter, substrate-binding protein (NCBI) from Streptococcus pneumoniae D39
SP_0092 ABC transporter substrate-binding protein from Streptococcus pneumoniae TIGR4
Aligns to 355:488 / 491 (27.3%), covers 100.0% of PF12010, 118.0 bits

• function: Probably part of an ABC transporter complex involved in carbohydrate transport.
  subunit: Exists as a monomer, homodimer, homotrimer and homotetramer; oligomerization increases with higher protein concentration.
• SPD_0090 Negatively Contributes to Virulence of Streptococcus pneumoniae
  Cao, Frontiers in microbiology 2022
  • “...Microbiol Front. Microbiol. Frontiers in Microbiology 1664-302X Frontiers Media S.A. 9234739 10.3389/fmicb.2022.896896 Microbiology Original Research SPD_0090 Negatively Contributes to Virulence of Streptococcus pneumoniae Cao Linlin 1 Li Nan 1 Dong Yingshan 1 Yang Xiao-Yan 1 Liu Jiajia 1 He Qing-Yu 1 * Ge Ruiguang 2 *...”
  • “...hemin, and ferric ion). Our previous study showed that both mRNA and protein levels of SPD_0090 were significantly upregulated in the piuA/ piaA/ pitA triple mutant, but its detailed biological function is unknown. In this study, we constructed spd _ 0090 knockout and complement strain and...”
• Identification and Tetramer Structure of Hemin-Binding Protein SPD_0310 Linked to Iron Homeostasis and Virulence of Streptococcus pneumoniae
  Cao, mSystems 2022
  • “...homotetramer conformation, which is required for hemin binding. SPD_0310 can interact with many hemin-binding proteins (SPD_0090, SPD_1609, and GAPDH) located on the cell surface, which contributes to hemin transfer to the cytoplasm. It also has a high affinity with other iron transporters in the cytoplasm (SPD_0226...”
  • “...used as follows: 12.5, 50, and 100 nM GAPDH (H); 2.0, 7.0, and 20 nM SPD_0090 (I); 2.0, 7.0, and 20 nM SPD_1609 (J); 0.5, 0.75, and 1.0 mM SPD_0226 (K); and 0.8, 1.6, and 2.8 mM SPD_0227 (L). The results in panels B and E...”
• The Two-Component System 09 Regulates Pneumococcal Carbohydrate Metabolism and Capsule Expression.
  Hirschmann, Microorganisms 2021
  • “...is imported by several ATP binding cassette (ABC) transporters and PTSs ( gadVWEF , spd_0088 spd_0090 , manNML , and spd_0559 spd_0561 ). Intracellular galactose or galactoseamine is metabolized by the tagatose pathway. The genes encoding enzymes of this pathway ( lacABCD, lacT , lacF-2 ,...”
• Host-glycan metabolism is regulated by a species-conserved two-component system in Streptococcus pneumoniae
  Andreassen, PLoS pathogens 2020
  • “...transporter permease [ 26 ] 5.3 SPD_0089 NgtP2 ABC transporter permease [ 26 ] 6.2 SPD_0090 NgtS ABC transporter substrate-binding protein [ 26 ] 6.7 SPD_0444 EndoD (GH85) Endo --N-acetylglucosaminidase [ 26 ][ 33 ] 7.1 SPD_1969 GH20 Exo --hexosaminidase [ 34 ] 9.3 SPD_1970 ROK...”
  • “...GH92 38 14 1,41 x 10 19 SPD_0088 NgtP1 38 17 5,45 x 10 18 SPD_0090 NgtS 38 17 5,45 x 10 18 SPD_0158 RR07 38 17 5,45 x 10 18 SPD_1971 GH38 38 17 5,45 x 10 18 SPD_1972 GH125 38 17 5,45 x 10...”
• Deletion of the Zinc Transporter Lipoprotein AdcAII Causes Hyperencapsulation of Streptococcus pneumoniae Associated with Distinct Alleles of the Type I Restriction-Modification System
  Durmort, mBio 2020
  • “...2.36 1.24 SPD_0053 purF Amidophosphoribosyltransferase 2.27 2.34 1.25 SPD_0055 purN Phosphoribosylglycinamide formyltransferase 2.13 2.18 1.36 SPD_0090 ABC transporter lipoprotein 2.02 2.19 2.04 SPD_0166 ribH Riboflavin synthase, beta subunit 2.76 3.44 1.56 SPD_0167 ribB Riboflavin biosynthesis protein RibB 2.51 3.34 1.71 SPD_0168 ribE Riboflavin synthase subunit alpha...”
• Redefining the Small Regulatory RNA Transcriptome in Streptococcus pneumoniae Serotype 2 Strain D39.
  Sinha, Journal of bacteriology 2019
  • “...() 112142-112229 () 127264-127488 () 131773-131842 () spd_0090, spd_0089 spd_0101, capD argH, spd_0112 spd_0124, spd_0125 tmrU, spd_0128 Spd_sr18 Spd_sr19b...”
• Integrated Translatomics with Proteomics to Identify Novel Iron-Transporting Proteins in Streptococcus pneumoniae
  Yang, Frontiers in microbiology 2016
  • “...378 SUGAR/ION TRANSPORT gi|116516149 SPD_0066 PTS system, IIB component 23.36 0.006 261.8 0.000 30 gi|116516928 SPD_0090 ABC transporter, substrate-binding protein 11.99 0.017 250.12 0.000 45 gi|116516955 SPD_0262 PTS system, mannose/fructose/sorbose family protein, IID component 1.52 0.035 5 0.000 126 gi|116515558 SPD_0293 PTS system, IIA component 1.8...”
  • “...included two sugar ABC transporter proteins, SPD_1409, malX, and two putative conserved ABC transporter SBPs, SPD_0090, and SPD_1609. SPD_0090 protein is located immediately adjacent to two predicted permease proteins SPD_0088 and SPD_0089 of the same transport system (operon 45), while SPD_1609 gene couples with four neighboring...”
• N-acetylgalatosamine-Mediated Regulation of the aga Operon by AgaR in Streptococcus pneumoniae
  Afzal, Frontiers in cellular and infection microbiology 2016
  • “...1-epimerase, GalM 2.0 spd_0088 ABC transporter, permease protein 5.9 spd_0089 ABC transporter, permease protein 6.4 spd_0090 ABC transporter, substrate-binding protein 76.8 spd_0091 Hypothetical protein 5.4 spd_0092 Hypothetical protein 6.5 spd_0447 Transcriptional regulator, MerR family protein, GlnR 4.1 spd_0448 Glutamine synthetase, type I, GlnA 2.0 spd_0490 Hypothetical...”
• Molecular Characterization of N-glycan Degradation and Transport in Streptococcus pneumoniae and Its Contribution to Virulence
  Robb, PLoS pathogens 2017
  • “...NgtP1 Putative ABC transporter transmembrane permease - SP_0091 NgtP2 Putative ABC transporter transmembrane permease - SP_0092 NgtS Putative ABC transporter solute binding protein STM [ 26 ] a These genes comprise the CPL. Abbreviation: Signature-tagged mutagenesis (STM). Family 125 glycoside hydrolases are quite widely distributed in...”
  • “...Notably, this analysis also identified an ABC transport system, encoded by locus tags SP_0090 to SP_0092 (scores >0.7), and EndoD (scores >0.8) as possibly being functionally associated with the CPL. Indeed, in 8 of the 10 loci we identified a homologous ABC transporter that is also...”

spr0083 ABC transporter solute binding protein - sugar transport (NCBI ptt file) from Streptococcus pneumoniae R6
Aligns to 378:511 / 514 (26.1%), covers 100.0% of PF12010, 117.9 bits

• Quantitative proteomic view associated with resistance to clinically important antibiotics in Gram-positive bacteria: a systematic review
  Lee, Frontiers in microbiology 2015
  • “...genes in the linezolid-resistant strains (1974M2-LZD and R6M2-LZD), they identified two ABC transporter substrate-binding proteins (Spr0083 and Spr1527) and the catabolite control protein A (CcpA) as factors associated with resistance to linezolid (Feng et al., 2011 ). CcpA is known to function as the global regulator...”
  • “...resistance. Together with CcpA, inactivation of two ABC transporters putatively involved in the sugar transport (Spr0083 and Spr1527) also reduced resistance to linezolid of S. pneumonia (Feng et al., 2011 ). Notably, S. pneumoniae is predicted to be highly dependent on external sugars to fulfill its...”

SGO_1763 ABC transporter substrate-binding protein SP0092 (RefSeq) from Streptococcus gordonii str. Challis substr. CH1
Aligns to 350:483 / 486 (27.6%), covers 100.0% of PF12010, 117.8 bits

• SPD_0090 Negatively Contributes to Virulence of Streptococcus pneumoniae
  Cao, Frontiers in microbiology 2022
  • “...homologous proteins are highly conserved in Gram-positive bacteria. Several highly homologous proteins of SPD_0090, e.g., SGO_1763, BCR26_01130, and CBF35_08275, are annotated as sugar ABC transporter substrate-binding proteins in the Uniprot database, but no experimental data studies reveal their function so far. As mentioned in the introduction...”
• Streptococcus gordonii Type I Lipoteichoic Acid Contributes to Surface Protein Biogenesis.
  Lima, mSphere 2019
  • “...SGO_0771 Proline dipeptidase SGO_1580 PTS, cellobiose-specific IIB component a PtcC SGO_1576 PTS, cellobiose-specific IIC component SGO_1763 Putative aldouronate transport system substrate-binding protein SGO_1799 Putative endopeptidase SGO_0004 Putative lipoprotein SGO_0233 Putative lipoprotein SGO_0060 Putative membrane protein SGO_0140 Putative multi-antimicrobial-extrusion family transporter ArcT SGO_1589 Putative transaminase/peptidase LytR SGO_0535...”
• Mass Spectrometric Analysis of Whole Secretome and Amylase-precipitated Secretome Proteins from Streptococcus gordonii.
  Maddi, Journal of proteomics & bioinformatics 2014
  • “...2 3.3 Pyruvate kinase pyk SGO_1339 Glycolysis 55 2 7.4 ABC transporter, substrate-binding protein * SGO_1763 ABC transporter 54 2 7.6 LPXTG cell wall surface protein, glycosyl hydrolase * SGO_0208 Glycosyl hydrolase family 85 174 2 1.6 Lipoprotein * SGO_1931 Unknown 19 2 9.4 ABC transporter,...”

Or search for genetic data about PF12010 in the Fitness Browser