Family Search for PF08020 (DUF1706)
April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.
PF08020 hits 17 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
LMRG_01810 hypothetical protein from Listeria monocytogenes 10403S
lmo2438 lmo2438 from Listeria monocytogenes EGD-e
Aligns to 1:165 / 170 (97.1%), covers 100.0% of PF08020, 199.9 bits
- Listeria monocytogenes σA Is Sufficient to Survive Gallbladder Bile Exposure
Boonmee, Frontiers in microbiology 2019 - “...Transcriptional regulator, GntR family 2.25 0.00 LMRG_01669 lmo2163 LMRG_01669-LMRG_01673 Myo-inositol 2-dehydrogenase 1, Oxidoreductase 2.21 0.00 LMRG_01810 lmo2438 ClbS/DfsB family four-helix bundle protein 2.97 0.00 LMRG_01955 lmo2741 LMRG_01955-LMRG_01957 Multidrug-efflux transporter, major facilitator superfamily (MFS);Efflux pump Lde 2.62 0.00 LMRG_02234 lmo2688 LMRG_02235-LMRG_02233 Cell division protein FtsW 2.56 0.01...”
- Listeria monocytogenes σA Is Sufficient to Survive Gallbladder Bile Exposure
Boonmee, Frontiers in microbiology 2019 - “...regulator, GntR family 2.25 0.00 LMRG_01669 lmo2163 LMRG_01669-LMRG_01673 Myo-inositol 2-dehydrogenase 1, Oxidoreductase 2.21 0.00 LMRG_01810 lmo2438 ClbS/DfsB family four-helix bundle protein 2.97 0.00 LMRG_01955 lmo2741 LMRG_01955-LMRG_01957 Multidrug-efflux transporter, major facilitator superfamily (MFS);Efflux pump Lde 2.62 0.00 LMRG_02234 lmo2688 LMRG_02235-LMRG_02233 Cell division protein FtsW 2.56 0.01 LMRG_02481...”
CD1846 hypothetical protein from Clostridium difficile 630
Aligns to 1:169 / 172 (98.3%), covers 100.0% of PF08020, 199.6 bits
IRC4_YEAST / Q03036 Uncharacterized protein IRC4; Increased recombination centers protein 4 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 2 papers)
YDR540C Irc4p from Saccharomyces cerevisiae
Aligns to 1:166 / 179 (92.7%), covers 100.0% of PF08020, 198.4 bits
- HGTphyloDetect: facilitating the identification and phylogenetic analysis of horizontal gene transfer
Yuan, Briefings in bioinformatics 2023 - “...which 8 gene candidates were previously reported ( Figure 2A ), that is, YNR058W (BIO3), YDR540C, YJL217W, YKL216W (URA1), YFR055W, YOL164W (BDS1), YMR090W and YNR057C (BIO4), respectively. The remaining 15 genes that HGTphyloDetect identified were not previously reported to be linked to HGT, although the Alien...”
- VID22 counteracts G-quadruplex-induced genome instability
Galati, Nucleic acids research 2021 - “...the Cdc48p-Npl4p-Ufd1p segregase SST2 YLR452C 0.15523 0.1565 0.01984 0.1105 0.0641 GTPase-activating protein for Gpa1p IRC4 YDR540C 0.1842 0.02255 0.106 0.1043 0.0660 Protein of unknown function RPL22A YLR061W 0.12007 0.00518 0.19649 0.1038 0.0831 Ribosomal 60S subunit protein L22A SCS22 YBL091C-A 0.09108 0.07698 0.13178 0.0999 0.0232 Protein involved...”
- Co-transcriptional recruitment of Puf6 by She2 couples translational repression to mRNA localization
Shahbabian, Nucleic acids research 2014 - “...T formula. Background represents an amplicon from an intergenic region between the genes YDR539W and YDR540C on Chromosome IV. For ChIP of Rpb1, an amplicon on SCR1 was used as background. Primers used for ChIP are listed in Supplementary Table S3. Chromatin immunoprecipitation-microarrays (ChIP-chip) ChIP-chip experiments...”
- Activator and repressor functions of the Mot3 transcription factor in the osmostress response of Saccharomyces cerevisiae
Martínez-Montañés, Eukaryotic cell 2013 - “...2.0E07 PAU1 (YIL176C) AUS1 (YOR011W) YAR066W PRM9 (YAR031W) IRC4 (YDR540C) RSN1 (YMR266W) 2.3 2.3 2.1 2.1 2.0 2.0 3.8E06 1.1E06 1.4E05 1.8E05 5.5E05 1.1E05 a...”
- Heterologous expression implicates a GATA factor in regulation of nitrogen metabolic genes and ion homeostasis in the halotolerant yeast Debaryomyces hansenii
García-Salcedo, Eukaryotic cell 2006 - “...YPR116W, YLR171W, YKL115C, YDR340W, YFL040W, SHE1, COS4, YDR540C, YAL064W, YBR147W, YIL001W, YJL043W, YEL076C, YDR428C, ATG29, YET2, YLR211C, YDR114C, PHM8,...”
- Contribution of horizontal gene transfer to the evolution of Saccharomyces cerevisiae
Hall, Eukaryotic cell 2005 - “...cerevisiae YKL216W/URA1 YJL217W YFR055W YJL218W YOL164W/BDS1 YDR540C YNR058W/BIO3 Uracil auxotroph Viable Viable Viable Alkyl-, aryl-sulfatase negative Viable...”
- “...Yersinia pestis; YJL218W, Methanosarcina mazei; YDR540C, E. faecalis; BIO3, Yersinia enterocolitica; YPL245W, Lactobacillus plantarum; YMR090W, Lactobacillus...”
- Previously uncharacterized genes in the UV- and MMS-induced DNA damage response in yeast
Hanway, Proceedings of the National Academy of Sciences of the United States of America 2002 - “...RTG2 SCS7 SNF7 SPO7 STP22 TOM6 UBI4 VPS36 YDR540C YGR122W YHL005C YHR189W YLR239C YLR412W YOR192C YPL047W YPL184C High sensitivity, both relative fitness ratios...”
- Type 1 fimbriation and phase switching in a natural Escherichia coli fimB null strain, Nissle 1917
Stentebjerg-Olesen, Journal of bacteriology 1999 - “...of the insertion element in Nissle 1917 (5) and YDR540c (6), which encodes a hypothetical (HYP) yeast protein in S. cerevisiae (GenBank accession no. 2131555)....”
SAK_0719 hypothetical protein from Streptococcus agalactiae A909
Aligns to 1:169 / 172 (98.3%), covers 100.0% of PF08020, 197.0 bits
SP_0939 hypothetical protein from Streptococcus pneumoniae TIGR4
SPD_0829 hypothetical protein from Streptococcus pneumoniae D39
Aligns to 1:169 / 172 (98.3%), covers 100.0% of PF08020, 196.4 bits
SCAZ3_03020 ClbS/DfsB family four-helix bundle protein from Streptococcus canis FSL Z3-227
Aligns to 1:169 / 172 (98.3%), covers 100.0% of PF08020, 194.3 bits
gbs0616 Unknown from Streptococcus agalactiae NEM316
Aligns to 1:169 / 172 (98.3%), covers 100.0% of PF08020, 193.1 bits
EF0034 conserved hypothetical protein from Enterococcus faecalis V583
Aligns to 1:166 / 169 (98.2%), covers 100.0% of PF08020, 191.7 bits
clbS / Q0P7K8 colibactin cyclopropane hydrolase from Escherichia coli (see 3 papers)
c2450 Hypothetical protein from Escherichia coli CFT073
CXG97_RS11495, WP_000290498 colibactin self-protection protein ClbS from Escherichia coli
Aligns to 1:166 / 170 (97.6%), covers 100.0% of PF08020, 185.8 bits
- Genome-wide analysis of fitness-factors in uropathogenic Escherichia coli during growth in laboratory media and during urinary tract infections
García, Microbial genomics 2021 - “...detected 87 fitness-genes during growth in human urine [ 38 ]. Of them, one gene (c2450, encoding a hypothetical protein) was absent from the UTI89 genome, and four genes were found in the list of urine fitness-genes for UTI89 in the current study ( Table 3...”
- Escherichia coli CFT073 Fitness Factors during Urinary Tract Infection: Identification Using an Ordered Transposon Library
Shea, Applied and environmental microbiology 2020 (secret) - ClbS Is a Cyclopropane Hydrolase That Confers Colibactin Resistance
Tripathi, Journal of the American Chemical Society 2017 - “...-mediated genotoxicity, although the mechanism of this protection was not defined. 7 ClbS (previously termed c2450) was first isolated from an activity-based protein profiling (ABPP) assay using electrophilic probes containing an -methylene- -butyrolactone moiety. 8 Cys167 of ClbS was demonstrated to be the site of alkylation....”
- Applications of small molecule probes in dissecting mechanisms of bacterial virulence and host responses
Puri, Biochemistry 2013 - “...of enzymes in non-pathogenic and uropathogenic E. coli . 36 The probes identified the enzyme c2450 as only active in the pathogenic strain. c2450 is a hybrid polyketide/non-ribosomal peptide synthase involved in synthesis of the virulence factor colibactin which activates the DNA checkpoint damage response in...”
- “...proteases ClpP1, ClpP2 34 Streptococcus pneumoniae Penicillin-binding proteins (PBPs) 35 Escherichia coli Polyketide/non-ribosomal peptide synthase c2450 36 Staphylococcus aureus Transferases MurA1, MurA2, PEP protein phosphotransferase (PtsI), Alkylhydroperoxide reductase C (AhpC) 37 Staphylococcus aureus Protein tyrosine phosphotases PTPA and PTPB, Secretory antigen SsaA2 38 Vibrio cholerae, Pseudomonas...”
- Target analysis of α-alkylidene-γ-butyrolactones in uropathogenic E. coli
Kunzmann, Molecular bioSystems 2012 (PubMed)- “...this privileged motif. Furthermore the gene of one protein, c2450, which was only identified in uropathogenic E. coli belongs to a genomic island which encodes...”
- “...colibactin synthesis has been elucidated, the function of c2450 remains elusive. Investigation of the binding site showed that c2450 is modified at a cysteine...”
- The bacterial toxin colibactin triggers prophage induction
Silpe, Nature 2022 - “...word size=6, BLOSUM62 matrix) was used to identify clbS genes that match E. coli ClbS (WP_000290498) but that are found outside of pks clusters. The more distantly related ClbS-like proteins examined in this study (Fig. 3d ) were compiled from BLASTp results using E. coli ClbS...”
- “...1.2 tBLASTn result of top 230 clbS- like genes encoding proteins matching E. coli ClbS, WP_000290498 (tab 1); BLASTp result of top 5,000 ClbS-like proteins using E. coli ClbS, WP_000290498 as query (tab 2, available as a separate Excel file). Supplementary Table 5 PFU ml 1...”
- Transcriptome profiling of avian pathogenic Escherichia coli and the mouse microvascular endothelial cell line bEnd.3 during interaction
Wang, PeerJ 2020 - “...EC senescence and immune cell apoptosis, were downregulated during infection, while only one colibactin gene (CXG97_RS11495) was upregulated. The type VI secretion system (T6SS) contributes to the pathogenicity of bacteria ( Zhou et al., 2012 ) and bacteriabacteria interactions ( Basler, Ho & Mekalanos, 2013 )....”
WP_193641739 ClbS/DfsB family four-helix bundle protein from Bifidobacterium longum subsp. infantis
Aligns to 1:169 / 172 (98.3%), covers 100.0% of PF08020, 185.0 bits
- The bacterial toxin colibactin triggers prophage induction
Silpe, Nature 2022 - “...E. coli 69 ( QDM73539 ), Dickeya dadantii ( WP_038909824 ) and B. longum ( WP_193641739 ). Accession numbers used for the design of qPCR primers and reporter construction are: E. faecium E1007 ( AHWP00000000 ), E. coli BW25113 and lambda ( NZ_CP009273 and NC_001416.1 ),...”
WP_000115885 ClbS/DfsB family four-helix bundle protein from Escherichia coli
Aligns to 1:165 / 172 (95.9%), covers 100.0% of PF08020, 183.1 bits
5cofA / Q1R1X2 Crystal structure of uncharacterised protein q1r1x2 from escherichia coli uti89 (see paper)
Aligns to 2:166 / 172 (95.9%), covers 100.0% of PF08020, 183.1 bits
- Ligand: calcium ion (5cofA)
7mtlA / Q0P7K8 Crystal structure of colibactin self-resistance protein clbs in complex with a dsdna (see paper)
Aligns to 1:165 / 168 (98.2%), covers 98.8% of PF08020, 182.3 bits
WP_038909824 ClbS/DfsB family four-helix bundle protein from Dickeya dadantii
Aligns to 1:165 / 172 (95.9%), covers 100.0% of PF08020, 177.9 bits
- The bacterial toxin colibactin triggers prophage induction
Silpe, Nature 2022 - “...), E. albertii ( WP_000115842 ), E. coli 69 ( QDM73539 ), Dickeya dadantii ( WP_038909824 ) and B. longum ( WP_193641739 ). Accession numbers used for the design of qPCR primers and reporter construction are: E. faecium E1007 ( AHWP00000000 ), E. coli BW25113 and...”
WP_095844971 ClbS/DfsB family four-helix bundle protein from Gibbsiella quercinecans
Aligns to 1:166 / 171 (97.1%), covers 100.0% of PF08020, 174.6 bits
- The bacterial toxin colibactin triggers prophage induction
Silpe, Nature 2022 - “...WP_000290498 ), M. theicola ( PNS10644 ), S. erythrinae ( WP_132453050 ), Gibbsiella quercinecans ( WP_095844971 ), S. alvi ( WP_025331471 ), F. perrara ( WP_039103908 ), Metakosakonia sp. ( BBE76153 ), K. intestini ( PWF54517 ), E. albertii ( WP_000115842 ), E. coli 69 (...”
U876_02250 ClbS/DfsB family four-helix bundle protein from Aeromonas hydrophila NJ-35
Aligns to 1:165 / 171 (96.5%), covers 100.0% of PF08020, 172.1 bits
WP_000115842 ClbS/DfsB family four-helix bundle protein from Escherichia albertii
Aligns to 1:166 / 168 (98.8%), covers 100.0% of PF08020, 167.7 bits
- The bacterial toxin colibactin triggers prophage induction
Silpe, Nature 2022 - “...WP_039103908 ), Metakosakonia sp. ( BBE76153 ), K. intestini ( PWF54517 ), E. albertii ( WP_000115842 ), E. coli 69 ( QDM73539 ), Dickeya dadantii ( WP_038909824 ) and B. longum ( WP_193641739 ). Accession numbers used for the design of qPCR primers and reporter construction...”
Or search for genetic data about PF08020 in the Fitness Browser
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory