Family Search for PF12883 (DUF3828)

PF12883.7 hits 8 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

YqhF / b3013 DUF3828 domain-containing protein YqhG from Escherichia coli K-12 substr. MG1655 (see 2 papers)
2 alignments in 24:290 / 308 (62.3%), covering up to 97.5% of PF12883, 133.5 bits

STY2607 putative lipoprotein (NCBI ptt file) from Salmonella enterica subsp. enterica serovar Typhi str. CT18
Aligns to 22:143 / 172 (70.9%), covers 98.4% of PF12883, 131.3 bits

• Selection of Salmonella enterica serovar Typhi genes involved during interaction with human macrophages by screening of a transposon mutant library
  Sabbagh, PloS one 2012
  • “...screening of S . Typhi mutant pool within humanized mice ( STY0016 , STY0039 , STY2607 , ydhO and STY4458 ) [55] and antibodies against some of their products (CdtB, AcrA, PagC, PflB, STY1364, members of the bcf , csg , stb fimbrial operons and of...”

YbjP / b0865 DUF3828 domain-containing lipoprotein YbjP from Escherichia coli K-12 substr. MG1655 (see paper)
P75818 Uncharacterized lipoprotein YbjP from Escherichia coli (strain K12)
b0865 predicted lipoprotein (NCBI) from Escherichia coli str. K-12 substr. MG1655
Aligns to 40:155 / 171 (67.8%), covers 99.2% of PF12883, 97.9 bits

• The Escherichia coli proteome: past, present, and future prospects
  Han, Microbiology and molecular biology reviews : MMBR 2006
  • “...receptor 5.43/78,341.86 YbiS YbjP YcbL YcbY P0AAX8 P75818 P75849 P75864 5.6/30,863.3 5.48/16,984.75 4.95/23,784.05 8.96/78,854.1 YccU YcdO YceB YceD YceI P75874...”
• Reconfiguring the quorum-sensing regulator SdiA of Escherichia coli to control biofilm formation via indole and N-acylhomoserine lactones
  Lee, Applied and environmental microbiology 2009
  • “...group and/or gene b0486 b0545 b0707 b0753 b0773 b0824 b0865 b0897 b1188 b1205 b1256 b1269 b1375 b1376 b1406 b1423 b1440 b1441 b1442 b1443 b1444 b1470 b1487...”
• Genome-wide analysis of the general stress response network in Escherichia coli: sigmaS-dependent genes, promoters, and sigma factor selectivity
  Weber, Journal of bacteriology 2005
  • “...b1051 b4107 b0389 b0419 b0581 b0643 b0707 b0753 b0767 b0865 b1003 b1050 b1188 b1164 b1258 b1259 b1341 b1547 b1614 b1783 b1784 b1847 b1999 b2080 b2086 b2602...”
• Genome-wide analysis of lipoprotein expression in Escherichia coli MG1655
  Brokx, Journal of bacteriology 2004
  • “...368.30 187.63 295.74 45.37 yafT ylcB ybjP yfhM slp b0217 b0572 b0865 b2520 b3506 15.35 P 83.3 P 23.3 P 22 A 5.6 A 344.12 2,207.72 1,027.23 490.08 228.51 13.7 M...”
• Microarray analysis of transposition targets in Escherichia coli: the impact of transcription
  Manna, Proceedings of the National Academy of Sciences of the United States of America 2004
  • “...are marked on abscissa. 9782 www.pnas.orgcgidoi10.1073pnas.0400745101 b3684 b0865 b2349 b0864 b4209 b0207 b3395 b4210 b2827 b2593 b4042 b3410 b3399 b4322 b2920...”
• SigmaS-dependent gene expression at the onset of stationary phase in Escherichia coli: function of sigmaS-dependent genes and identification of their promoter sequences
  Lacour, Journal of bacteriology 2004
  • “...(inner membrane) protein (b0707) Putative enzyme (b0865) Hypothetical protein, biofilm dependent (b1481) Hypothetical protein (b1724) Hypothetical protein...”
• Combined, functional genomic-biochemical approach to intermediary metabolism: interaction of acivicin, a glutamine amidotransferase inhibitor, with Escherichia coli K-12
  Smulski, Journal of bacteriology 2001
  • “...b0662 b0707 b0753 b0786 b0789 b0790 b0800 b0806 b0836 b0865 b0897 b0964 b0966 b1003 b1045 b1050 b1060 b1103 b1104 b1105 b1107 b1108 b1111 b1112 b1128 b1145...”

Z1095 putative enzyme (NCBI ptt file) from Escherichia coli O157:H7 EDL933
Aligns to 42:157 / 173 (67.1%), covers 99.2% of PF12883, 90.2 bits

• Characterizing the Escherichia coli O157:H7 proteome including protein associations with higher order assemblies
  Pieper, PloS one 2011
  • “...(IM or OM) PP 7205 505 LAAC 20 D seq, 18 2* putative lipoprotein YbjP Z1095 ybjP 19150 L (IM or OM) unkn 7180 37 LSAC 21 T 2 putative lipoprotein YgdI Z4126 (ygdI) 8342 L (IM or OM) unkn 5912 1112 LSAC 21 S 3...”

c3747 Hypothetical protein yqhG precursor (NCBI ptt file) from Escherichia coli CFT073
2 alignments in 1:199 / 217 (53.9%), covering up to 41.8% of PF12883, 70.1 bits

• yqhG Contributes to Oxidative Stress Resistance and Virulence of Uropathogenic Escherichia coli and Identification of Other Genes Altering Expression of Type 1 Fimbriae
  Bessaiah, Frontiers in cellular and infection microbiology 2019
  • “...N-6-adenine-methyltransferase of bacteriophage ynjA c2154 ynjA Hypothetical protein yegQ c2611 yegQ Putative protease yegQ yqhG c3747 yqhG Hypothetical protein YqhG precursor Adjacent to yqhG c3746-c3747 yqhG Hypothetical protein YqhG precursor * List includes insertions identified that had at least 4-fold greater or 4-fold less relative light...”

YPO1354 putative lipoprotein (NCBI ptt file) from Yersinia pestis CO92
Aligns to 41:176 / 191 (71.2%), covers 97.5% of PF12883, 51.1 bits

• Inhibition of Yersinia pestis DNA adenine methyltransferase in vitro by a stibonic acid compound: identification of a potential novel class of antimicrobial agents
  McKelvie, British journal of pharmacology 2013
  • “...Conserved hypothetical protein 3.89E-02 1.11E-03 1.97 YPO1354 Putative lipoprotein 4.29E-02 1.30E-03 1.96 YPO2935 Putative exported protein 2.93E-03 1.28E-05...”

C6BHF3 Putative periplasmic protein from Ralstonia pickettii (strain 12D)
Aligns to 31:148 / 151 (78.1%), covers 96.7% of PF12883, 45.7 bits

• Crystallization and preliminary X-ray study of TsiV3 from Vibrio cholerae.
  Zhang, Acta crystallographica. Section F, Structural biology communications 2014

BT_3511 hypothetical protein (NCBI ptt file) from Bacteroides thetaiotaomicron VPI-5482
Aligns to 51:167 / 167 (70.1%), covers 92.6% of PF12883, 28.1 bits

• Filling out the structural map of the NTF2-like superfamily
  Eberhardt, BMC bioinformatics 2013
  • “...mainly in bacteria: DUF3828, DUF3887 and DUF4878. Structures of representatives of each of these domains: BT_3511 from Bacteroides thetaiotaomicron (strain VPI-5482) [PDB:3KZT], Cj0202c from Campylobacter jejuni subsp. jejuni serotype O:2 (strain NCTC 11168) [PDB:3K7C], rumgna_01855) and RUMGNA_01855 from Ruminococcus gnavus (strain ATCC 29149) [PDB:4HYZ] have been...”
  • “...peptide and glycosidic linkages in peptidoglycan. Structure description The crystal structure of a DUF3828 protein, BT_3511 protein [UniProtKB:Q8A1Z7] from Bacteroides thetaiotaomicron (strain VPI-5482), was determined to 2.1 resolution by MAD method and deposited to PDB as [PDB:3KZT]. The final model includes two molecules (residues 26167), five...”

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