Family Search for PF06945 (DUF1289)

PF06945 hits 13 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

CC1308 hypothetical protein from Caulobacter crescentus CB15
Aligns to 13:60 / 74 (64.9%), covers 97.9% of PF06945, 73.6 bits

• Comparative genomic evidence for a close relationship between the dimorphic prosthecate bacteria Hyphomonas neptunium and Caulobacter crescentus
  Badger, Journal of bacteriology 2006
  • “...CC1167 CC1177 CC2341 CC1951 CC2070 CC1842 CC2007 CC1966 CC1308 CC3693 CC3693 CC2430 CC2431 CC3555 CC3474 CC1345 CC1855 CC2132 CC2627 CC1453 CC2822 CC2480 CC2107...”

PP1455 conserved hypothetical protein from Pseudomonas putida KT2440
Aligns to 19:65 / 74 (63.5%), covers 97.9% of PF06945, 71.7 bits

• UEG Week 2023 Poster Presentations
  , United European gastroenterology journal 2023

YdhL / b1648 DUF1289 domain-containing protein YdhL from Escherichia coli K-12 substr. MG1655 (see paper)
b1648 orf, hypothetical protein from Escherichia coli str. K-12 substr. MG1655
P64474 Uncharacterized protein YdhL from Escherichia coli (strain K12)
Aligns to 12:58 / 79 (59.5%), covers 97.9% of PF06945, 68.2 bits

• Chicken Intestinal Microbiota Modulation of Resistance to Nephropathogenic Infectious Bronchitis Virus Infection Through IFN-I
  Chang, 2022
• Genome-Scale Mapping of Escherichia coli σ54 Reveals Widespread, Conserved Intragenic Binding
  Bonocora, PLoS genetics 2015
  • “...3401 11.352 IA14 1724329 2 C TGG TTCAGTGT TTGC T 1724326 - b1649 nemR + b1648 ydhL 363 8.27 IA15 1781364 6 GC GGC ACGGAAAC TGC A 1781359 - b1701 fadK + b1696 ydiP 4015 10.191 IA16 2060666 1 C TGG TCGATAAT TTGC A 2060657 +...”
• 18th Congress of the European Hematology Association, Stockholm, Sweden, June 13–16, 2013
  , Haematologica 2013
• Infectious bronchitis virus variants: a review of the history, current situation and control measures
  Sjaak, Avian pathology : journal of the W.V.P.A 2011 (secret)
• Characterization of an avian infectious bronchitis virus isolated in China from chickens with nephritis
  Zhou, Journal of veterinary medicine. B, Infectious diseases and veterinary public health 2004 (secret)
• Severe acute respiratory syndrome vaccine development: experiences of vaccination against avian infectious bronchitis coronavirus
  Cavanagh, Avian pathology : journal of the W.V.P.A 2003 (secret)
• In Silico Prediction and Prioritization of Novel Selective Antimicrobial Drug Targets in Escherichia coli
  Svanberg, Antibiotics (Basel, Switzerland) 2021
  • “...protein YdfO P76156 2HH8 N/D N/D N/A 100% 79% 228 N/A ydhL Uncharacterized protein YdhL P64474 N/D N/D N/A 96% 98% 152 N/A ygfZ tRNA-modifying protein YgfZ P0ADE8 1VLY 1.30 Cytoplasm N/A 100% 84% 573 N/A yqeL Uncharacterized protein YqeL C1P613 N/D N/D N/A N/A N/A...”

PA3752 hypothetical protein from Pseudomonas aeruginosa PAO1
Aligns to 8:54 / 64 (73.4%), covers 97.9% of PF06945, 67.6 bits

• A gene network-driven approach to infer novel pathogenicity-associated genes: application to Pseudomonas aeruginosa PAO1
  De, mSystems 2023
  • “...several upregulated LDEGs in module 8 including PA0038, PA2883, PA3928 , and a downregulated gene PA3752 , which are not associated with any known pathways. We identified upregulated genes, such as PA0567, which functions in cell envelope homeostasis ( 105 ), PA1592, which is within pathway...”

XCV1627 putative NUDIX hydrolase family protein from Xanthomonas campestris pv. vesicatoria str. 85-10
Aligns to 15:61 / 267 (17.6%), covers 89.6% of PF06945, 66.7 bits

• Identification of genes in Xanthomonas campestris pv. vesicatoria induced during its interaction with tomato
  Tamir-Ariel, Journal of bacteriology 2007
  • “...as a means of DNA repair. Also, sseA (Xcv1627) encoding a thiosulfate sulfotransferase may be involved in the formation of thiosulfate and/or cyanide...”
  • “...Xcv4441d Xcv0477 Xcv3652 Xcv4333c Xcv2047c,f Xcv4285 Xcv1627 Xcv0399 Xcv0264d Xcv4482d Xcv3051c Xcv0181c,f,g Xcv3809c Xcv3586 Xcv0713 Xcv3302 bga2; degradation...”

YPO2376 conserved hypothetical protein from Yersinia pestis CO92
Aligns to 54:100 / 121 (38.8%), covers 97.9% of PF06945, 66.2 bits

• Redefining the differences in gene content between Yersinia pestis and Yersinia pseudotuberculosis using large-scale comparative genomics
  Califf, Microbial genomics 2015
  • “...family transporter protein YPO1380 YPO2315 Hypothetical protein YPO2315 Pcp Lipoprotein YPO2373 YPO2375 Aldo/keto reductase YPO2375 YPO2376 Hypothetical protein YPO2376 sepC Insecticial toxin YPO2380 YPO2493 Dioxygenase subunit alpha YPO2493 In silico screen of the Y. pestis pan-genome across Y. pseudotuberculosis genomes Based on default values in LS-BSR,...”
• Application of DNA microarrays to study the evolutionary genomics of Yersinia pestis and Yersinia pseudotuberculosis
  Hinchliffe, Genome research 2003
  • “...biovars subsequently lost regions YPO0738-YPO0754 and YPO2375- YPO2376 before the individual strains diverged by the loss of strain-specific regions, whereas...”
  • “...before the loss of YPO0738-YPO0754 and YPO2375- YPO2376. Genome Research www.genome.org 2025 Downloaded from genome.cshlp.org on February 13, 2017 - Published...”

STM1438 putative oxidoreductase from Salmonella typhimurium LT2
Aligns to 12:58 / 79 (59.5%), covers 97.9% of PF06945, 64.4 bits

• Correlation of phenotype with the genotype of egg-contaminating Salmonella enterica serovar Enteritidis
  Morales, Applied and environmental microbiology 2005
  • “...S. enterica serovar Enteritidis PT4 STM0286 STM0696 STM0911 STM1438 STM2001 STM2586 STM2609 STM4162 STM4397 STM4417 Absent in PT13A, present in PT4c Gene VOL....”

PMI1391 hypothetical protein from Proteus mirabilis HI4320
Aligns to 12:58 / 79 (59.5%), covers 97.9% of PF06945, 64.0 bits

• MrpJ Directly Regulates Proteus mirabilis Virulence Factors, Including Fimbriae and Type VI Secretion, during Urinary Tract Infection
  Debnath, Infection and immunity 2018
  • “...metQ (210) PMI1286; osmB (83) PMI1350; ompW (44) PMI1391 (87) PMI1409; lpp (122) NA PMI1470; fim8J (122) PMI1629; fliE (61) PMI1672; flhD (1945) PMI1676;...”

Rmet_1730 DUF1289 domain-containing protein from Cupriavidus metallidurans CH34
Q1LML7 DUF1289 domain-containing protein from Cupriavidus metallidurans (strain ATCC 43123 / DSM 2839 / NBRC 102507 / CH34)
Aligns to 5:52 / 66 (72.7%), covers 97.9% of PF06945, 62.9 bits

• Antisense transcription is associated with expression of metal resistance determinants in Cupriavidus metallidurans CH34
  Große, Metallomics : integrated biometal science 2024
  • “...Rmet_5088 dppA 2.35 Q1LD29 Extracellular solute-binding protein, family 5 Rmet_4082 2.33 Q1LFX7 Putative uncharacterized protein Rmet_1730 2.25 Q1LML7 Putative uncharacterized protein M_AE_CH (305) Rmet_1125 fdhD 21.74 Q1LPB5 Formate dehydrogenase family accessory protein FdhD Rmet_4750 16.65 Q1LE14 Rh-like protein/ammonium transporter Rmet_1124 14.09 Q1LPB6 Oxidoreductase alpha (Molybdopterin) subunit...”
• Antisense transcription is associated with expression of metal resistance determinants in Cupriavidus metallidurans CH34
  Große, Metallomics : integrated biometal science 2024
  • “...2.35 Q1LD29 Extracellular solute-binding protein, family 5 Rmet_4082 2.33 Q1LFX7 Putative uncharacterized protein Rmet_1730 2.25 Q1LML7 Putative uncharacterized protein M_AE_CH (305) Rmet_1125 fdhD 21.74 Q1LPB5 Formate dehydrogenase family accessory protein FdhD Rmet_4750 16.65 Q1LE14 Rh-like protein/ammonium transporter Rmet_1124 14.09 Q1LPB6 Oxidoreductase alpha (Molybdopterin) subunit Rmet_0462 10.56...”

VCA0426 conserved hypothetical protein from Vibrio cholerae O1 biovar eltor str. N16961
Aligns to 24:70 / 77 (61.0%), covers 97.9% of PF06945, 62.3 bits

• Comparative analysis of superintegrons: engineering extensive genetic diversity in the Vibrionaceae
  Rowe-Magnus, Genome research 2003
  • “...to the V. cholerae VCA0476 36% identity to the V. cholerae VCA0426 (E = 4e 6) -- a Cassettes (c) have been named according to their plasmid number (see Table 1)...”

DDB_G0282477 hypothetical protein from Dictyostelium discoideum AX4
Aligns to 30:78 / 88 (55.7%), covers 97.9% of PF06945, 61.8 bits

• Comparative genomics of the social amoebae Dictyostelium discoideum and Dictyostelium purpureum
  Sucgang, Genome biology 2011
  • “...DPU_G0069806 DUF885 Unknown DDB_G0278355 Unknown 155362 DPU_G0059974 DUF1121 Unknown DDB_G0277411 Unknown 39626 DPU_G0062812 DUF1289 Unknown DDB_G0282477 Unknown 27078 DPU_G0056950 DUF1294 Unknown DDB_G0285825 Unknown 86664 DPU_G0067456 a The Pfam domain designation [ 99 ]. b Confirmed or proposed function of the prokaryotic ortholog is given. c The...”

PP5224 conserved hypothetical protein from Pseudomonas putida KT2440
Aligns to 22:68 / 74 (63.5%), covers 93.8% of PF06945, 59.2 bits

• Genomotyping of Pseudomonas putida strains using P. putida KT2440-based high-density DNA microarrays: implications for transcriptomics studies
  Ballerstedt, Applied microbiology and biotechnology 2007
  • “...use of UPGMA parameters. Standard PCR and sequencing Diagnostic PCR of selected putative orfs (PP1265, PP5224) that were called absent in microarray analyses of P. putida DSM 3931 genomic DNA was performed using proofreading enzyme mixture High Fidelity PCR master (Roche Diagnostics, The Netherlands) and specific...”
  • “...replicates. We therefore used diagnostic PCR to investigate the presence of two of them (PP1265, PP5224) in DSM 3931; the other two appeared less important due to their limited size (~90bp). In both cases, PCR products of the expected sizes (1,108 and 1,062bp) were obtained that,...”

PA1788 hypothetical protein from Pseudomonas aeruginosa PAO1
Aligns to 8:55 / 155 (31.0%), covers 95.8% of PF06945, 59.0 bits

• High-resolution genotyping of Pseudomonas aeruginosa strains linked to acute post cataract surgery endophthalmitis outbreaks in India
  Kenchappa, Annals of clinical microbiology and antimicrobials 2005
  • “...coding for 50S ribosomal protein (PA4273) and many conserved hypothetical protein ORFs namely PA0234, PA1370, PA1788, PA2228, PA3350, PA1091, and PA4203. When comparison of isolates belonging to amplitype B alone was performed, eight polymorphic bands were observed in isolates L1446 and L1443 (Figure 3II ). All...”

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