Family Search for PF13252 (DUF4043)

Running HMMer for PF13252

PF13252 hits 9 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

NGO1090 hypothetical protein, putative phage associated protein from Neisseria gonorrhoeae FA 1090
Aligns to 6:426 / 431 (97.7%), covers 99.7% of PF13252, 511.4 bits

• Dual species transcriptomics reveals conserved metabolic and immunologic processes in interactions between human neutrophils and Neisseria gonorrhoeae
  Potter, PLoS pathogens 2024
  • “..., and NGO2113- ppk ), phage associated ORFs (NGO0489- rusA , NGO0509, NGO1002- traA , NGO1090- gp56 , NGO1116- prtR , and NGO1630), transcriptional regulators (NGO0797- xre , NGO1244- marR , and NGO1294- lrp ), respiration and ROS response proteins (NGO1189- hslO , NGO1249- ahpD ,...”
• Characterization of the dsDNA prophage sequences in the genome of Neisseria gonorrhoeae and visualization of productive bacteriophage
  Piekarowicz, BMC microbiology 2007
  • “...NGO1089 1046644104711 157 phage structural protein F116p44 [ P. aeruginosa phage F116] 42% on 140 NGO1090 10471731048468 431 phage structural protein F116p43 [ P. aeruginosa phage F116] 56, 72% on 415 NGO1091 10484891048887 132 hypothetical protein F116p42 [ P. aeruginosa phage F116] 34, 49% on 141...”

B4RKL3 Putative phage associated protein from Neisseria gonorrhoeae (strain NCCP11945)
NGK_0673 putative phage associated protein from Neisseria gonorrhoeae NCCP11945
Aligns to 6:426 / 431 (97.7%), covers 99.7% of PF13252, 510.4 bits

• Comparative Proteomics of Extended-Spectrum Cephalosporin-Resistant Neisseria gonorrhoeae Isolates Demonstrates Altered Protein Synthesis, Metabolism, Substance Transport, and Membrane Permeability
  Diao, Frontiers in microbiology 2020
  • “...NGO_0385 Deltaaminolevulinic acid dehydratase H 0 N 1.67 Q5FA05 NGO_0229 Uncharacterized protein 0 N 2.27 B4RKL3 NGK_0673 Putative phage associated protein Unknown 0 N 2.89 A0A171IPU0 NGTW08_p0025 TrbI U 1 N 2.79 A0A171IPV1 NGTW08_p0036 KorC 0 N 1.93 A0A171IPV3 NGTW08_p0038 IncC2 N 0 N 3.43 A0A1D3EEE6...”
• Comparative Proteomics of Extended-Spectrum Cephalosporin-Resistant Neisseria gonorrhoeae Isolates Demonstrates Altered Protein Synthesis, Metabolism, Substance Transport, and Membrane Permeability
  Diao, Frontiers in microbiology 2020
  • “...Deltaaminolevulinic acid dehydratase H 0 N 1.67 Q5FA05 NGO_0229 Uncharacterized protein 0 N 2.27 B4RKL3 NGK_0673 Putative phage associated protein Unknown 0 N 2.89 A0A171IPU0 NGTW08_p0025 TrbI U 1 N 2.79 A0A171IPV1 NGTW08_p0036 KorC 0 N 1.93 A0A171IPV3 NGTW08_p0038 IncC2 N 0 N 3.43 A0A1D3EEE6 sodB...”

DelCs14_4061 N4-gp56 family major capsid protein from Delftia sp. Cs1-4
Aligns to 5:370 / 371 (98.7%), covers 99.5% of PF13252, 422.8 bits

• Nanopods: a new bacterial structure and mechanism for deployment of outer membrane vesicles
  Shetty, PloS one 2011
  • “...hydrolase DelCs14_4099 Unknown Hemolysin coregulated protein (Hcp) DelCs14_2985 TPR repeat-containing protein DelCs14_3801 Conserved hypothetical protein DelCs14_4061 Unknown function (DUF1302) DelCs14_1756 Unknown function (DUF1329) DelCs14_1757 1 Identified in three independent samples. 2 Numbering in Delftia sp. Cs1-4 genome. 3 Nanopod protein A, see text. The forgoing provided...”

PEp14_00010 major head protein from Erwinia phage PEp14
Aligns to 5:362 / 365 (98.1%), covers 99.5% of PF13252, 352.5 bits

• Contributions of P2- and P22-like prophages to understanding the enormous diversity and abundance of tailed bacteriophages
  Casjens, Virology 2016
  • “...MCP has ~75% identity matches in two Enterobacteriaceae genera, and the putative PEp14 MCP (locus_tag PEp14_00010) has no convincing bacterial genome matches. We manually examined several hundred of these MCP matches in more detail and all were clearly present in (usually unannotated) prophages. The best authentic...”

NP_049514 hypothetical protein from Enterobacteria phage 933W
NP_049514 major head protein from Escherichia phage 933W
Z1479 unknown protein encoded by bacteriophage BP-933W from Escherichia coli O157:H7 EDL933
ECs1223 hypothetical protein from Escherichia coli O157:H7 str. Sakai
EDL933_1401 N4-gp56 family major capsid protein from Escherichia coli O157:H7 str. EDL933
Aligns to 1:404 / 404 (100.0%), covers 99.5% of PF13252, 322.8 bits

• Spread of a distinct Stx2-encoding phage prototype among Escherichia coli O104:H4 strains from outbreaks in Germany, Norway, and Georgia
  Beutin, Journal of virology 2012
  • “...60 37,335-38,549 44.877 46-50 28 (PMF); 5 (PFF) NP_049514 (9632520) 61 38,605-38,994 13.496 14 7 (PMF); 2 (PFF) NP_049515 (9632521) 78 51,952-60,372 309.315 250...”
• Evolution of the Stx2-encoding prophage in persistent bovine Escherichia coli O157:H7 strains
  Park, Applied and environmental microbiology 2013
  • “...strains examined as 45- and 13.5-kDa proteins encoded by Z1479 and Z1480 of BP-933W, respectively (Fig. 4). TEM showed a single phage produced by EDL933 with a...”
  • “..."1" and "2." (B) Genes encoding the sequenced protein. Z1479 and Z1480 are encoded in BP-933W. Matched peptides are shown in boldface. The 37-kDa protein band...”
• Genome evolution in major Escherichia coli O157:H7 lineages
  Zhang, BMC genomics 2007
  • “...protein 93% 100% 8% S-loop#69/OI#45 ECs1222 (Z1478) 2 hypothetical protein 93% 100% 8% S-loop#69/OI#45 ECs1223 (Z1479) 2 hypothetical protein 93% 100% 8% S-loop#69/OI#45 ECs1224 (Z1480) 2 hypothetical protein 93% 100% 8% S-loop#69/OI#45 ECs1225 (Z1481) 2 hypothetical protein 93% 100% 8% S-loop#69 ECs1226 2 hypothetical protein 93%...”
• Genes essential for the morphogenesis of the Shiga toxin 2-transducing phage from Escherichia coli O157:H7
  Mondal, Scientific reports 2016
  • “...NA NA NA No ORF60 (ECs1221) + + No ORF61 (ECs1222) + + No ORF62 (ECs1223) + + P22 coat protein superfamily ORF65 (ECs1226) + + No ORF67 (ECs1228) + + + phage tail fiber C-terminus domain, phage tail fiber repeat 2, multiple collagen like domains...”
• Identification of Escherichia coli O157:H7 genomic regions conserved in strains with a genotype associated with human infection
  Steele, Applied and environmental microbiology 2007
  • “...and -9 ECS0281 ECs0377 ECs0760 ECs1120 ECs1164 ECs1191 ECs1223 ECS1382 ECs1425 ECs1588 and -9 ECs1698 ECs1954 ECs1998 ECs2775 ECs2979 ECs4943 ECs4960 ECs5000...”
  • “...3 0 0 3 4 0 0 3 No No Yes No 69c ECs1217 and -8 ECs1219 ECs1223 ECs1251 ECs1252 10 10 10 10 10 10 2 2 0 10 5 3 3 0 5 5 0 0 0 5 No Yes Yes Yes No 72 ECs1374 and...”
• Genome evolution in major Escherichia coli O157:H7 lineages
  Zhang, BMC genomics 2007
  • “...portal protein 93% 100% 8% S-loop#69/OI#45 ECs1222 (Z1478) 2 hypothetical protein 93% 100% 8% S-loop#69/OI#45 ECs1223 (Z1479) 2 hypothetical protein 93% 100% 8% S-loop#69/OI#45 ECs1224 (Z1480) 2 hypothetical protein 93% 100% 8% S-loop#69/OI#45 ECs1225 (Z1481) 2 hypothetical protein 93% 100% 8% S-loop#69 ECs1226 2 hypothetical protein...”
• Overexpressed Proteins in Hypervirulent Clade 8 and Clade 6 Strains of Escherichia coli O157:H7 Compared to E. coli O157:H7 EDL933 Clade 3 Strain
  Amigo, PloS one 2016
  • “...secretion protein EscF 3.2944 0.021 YicS, putative secreted protein (EDL933_4982) 3.12 0.0001 Conserved phage protein EDL933_1401 3.1383 0.0001 Phage protein ECSP_2742 [TW14359] b 2.91 0.0001 Phage tail fiber protein EDL933_1406 3.1167 0.0001 Phage protein EDL933_1373 2.81 0.00078 DicA repressor ECSP_1724 [TW14359] b 3.1167 0.0023 ECSP_1569 [TW14359]...”
  • “...5.10 0.0039 Phage protein EDL933_1385 6.727 0.0001 Phage protein EDL933_1726 5.03 0.0001 Conserved phage protein EDL933_1401 6.105 0.0001 Dienelactone hydrolase 4.69 0.0001 EDL933_1410 5.696 0.0001 CheW, adaptor of CheA kinase 4.63 0.0001 EDL933_1419 5.205 0.0039 EDL933_p0016 4.59 0.0001 Phage tail fiber protein EDL933_1406 5.169 0.0001 FlgD,...”

CAPSD_BPKP2 / C0HJH8 Major capsid protein; Major structural protein; Major virion protein from Pseudomonas phage KPP25 (Bacteriophage KPP25) (see paper)
Aligns to 11:376 / 376 (97.3%), covers 97.6% of PF13252, 143.8 bits

• function: Assembles to form an icosahedral capsid.

Hac_1621 conserved hypothetical protein CUP0939 from Helicobacter acinonychis str. Sheeba
Aligns to 171:378 / 380 (54.7%), covers 40.9% of PF13252, 43.8 bits

• Genome, integration, and transduction of a novel temperate phage of Helicobacter pylori
  Luo, Journal of virology 2012
  • “...Sheeba -- Hac_1619, 73, 195 -- Hac_1620, 81, 182 Hac_1621, 87, 380 Hac_1622, 57, 119 Hac_1623, 71, 143 Hac_1615 (aa 858-1598), 80, 1739 Hac_1615 (aa 1-811), 76,...”
• Genome sequencing reveals a phage in Helicobacter pylori
  Lehours, mBio 2011
  • “...Unknown function C47B450004 Hac_1619 Absent Putative histidine kinase C47B450005 Hac_1620 Absent Putative histidine kinase C47B450006 Hac_1621 Absent Putative sensor protein C47B450007 Hac_1622 Absent Unknown function C47B450008 Hac_1623 Absent Unknown function C47B450009 Absent Absent Transposase C47B450010 Absent Absent Transposase C47B450011 Hac_1631 Absent Unknown function C47B450012 Hac_1632 Absent...”

I7H0H9 Major structural protein ORF14 from Helicobacter pylori bacteriophage KHP30
Aligns to 174:378 / 381 (53.8%), covers 41.2% of PF13252, 41.9 bits

• Characterization of Helicobacter pylori bacteriophage KHP30
  Uchiyama, Applied and environmental microbiology 2013
  • “...UniProt database (accession numbers I7H893 for ORF13 and I7H0H9 for ORF14). Moreover, for the analysis of mass spectrometric data, the database of protein data...”

HCD_00925 DUF4043 family protein from Helicobacter cetorum MIT 99-5656
Aligns to 176:381 / 389 (53.0%), covers 43.0% of PF13252, 41.1 bits

• Comparative analysis of prophage-like elements in Helicobacter sp. genomes
  Fan, PeerJ 2016
  • “...tape measure protein (HCD_00910); phage structure protein (HCD_00920, HCD_00930, and HCD_00960); phage major capsid protein (HCD_00925); UV radiation resistance protein (HCD_00935); phage prohead protease (HCD_00945); phage tail protein (HCD_00955); holin (HCD_00990); portal protein (HCD_01010); transposase (HCD_01015, and HCD_01020). Helicobacter phage Cluster D PhiHBZC1_1 is found in...”

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