Family Search for PF06295 (DUF1043)

PF06295 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.

YPO3565 putative membrane protein from Yersinia pestis CO92
YPTB3510 putative membrane protein from Yersinia pseudotuberculosis IP 32953
Aligns to 6:128 / 134 (91.8%), covers 99.2% of PF06295, 171.9 bits

• Growth of Yersinia pseudotuberculosis in human plasma: impacts on virulence and metabolic gene expression
  Rosso, BMC microbiology 2008
  • “...YPTB3485 (yqjD) YPO0570 putative membrane protein 0.674 (0.02) 0.576 (0.002) YPTB3486 YPO0569A 0.606 (0.026) YPTB3510 YPO3565 putative membrane protein 0.745 (0.02) YPTB3573 (panF) YPO3657A sodium/pantothenate symporteR 0.732 (0.028) YPTB3581 YPO3649 putative gamma carboxymuconolactone decarboxylase 0.573 (0.01) YPTB3617 or2852 putative Rhs accessory genetic element 0.632 (0.037) YPTB3622...”
• Growth of Yersinia pseudotuberculosis in human plasma: impacts on virulence and metabolic gene expression
  Rosso, BMC microbiology 2008
  • “...(0.013) YPTB3485 (yqjD) YPO0570 putative membrane protein 0.674 (0.02) 0.576 (0.002) YPTB3486 YPO0569A 0.606 (0.026) YPTB3510 YPO3565 putative membrane protein 0.745 (0.02) YPTB3573 (panF) YPO3657A sodium/pantothenate symporteR 0.732 (0.028) YPTB3581 YPO3649 putative gamma carboxymuconolactone decarboxylase 0.573 (0.01) YPTB3617 or2852 putative Rhs accessory genetic element 0.632 (0.037)...”

STM14_4039 Z-ring associated protein ZapG from Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
Aligns to 6:127 / 132 (92.4%), covers 99.2% of PF06295, 169.0 bits

• Identification of Novel Genes Mediating Survival of Salmonella on Low-Moisture Foods via Transposon Sequencing Analysis
  Jayeola, Frontiers in microbiology 2020
  • “...) 1.01 2.24 1.02 1.10 NC STM14_3527 ( nlpD ) NC 1.75 2.19 1.73 NC STM14_4039 ( yhcB ) ND 2.03 2.07 NC 3.88 STM14_4694 ( yifE )* 2.02 1.73 2.22 2.05 3.46 STM14_1755 ( rnfD ) 1.71 NC 1.2 NC NC STM14_4683 ( rbsR )*...”

STM3347 putative periplasmic protein from Salmonella typhimurium LT2
Aligns to 8:129 / 134 (91.0%), covers 99.2% of PF06295, 168.9 bits

• The target spectrum of SdsR small RNA in Salmonella
  Fröhlich, Nucleic acids research 2016
  • “...protein (43 to +45 in yhaH)::gfp FC yes yes ( 14 , 15 ) yhcB STM3347 3,46 cytochrome d ubiquinol oxidase subunit III (59 to +45 in yhcB)::gfp FC yes yes ( 14 , 15 , 17 ) rtsB STM4314 3,17 putative regulatory protein (161 to...”
• Salmonella enterica serovar typhimurium colonizing the lumen of the chicken intestine grows slowly and upregulates a unique set of virulence and metabolism genes
  Harvey, Infection and immunity 2011
  • “...b562 2.06 0.03 Function unknown STM0119 STM1088 STM3347 yabB pipB yhcB Putative cytoplasmic protein Secreted effector protein Putative periplasmic protein 2.28...”
• Media ion composition controls regulatory and virulence response of Salmonella in spaceflight
  Wilson, PloS one 2008
  • “...stabilizes ribosomes against dissociation STM2924 2.55 rpoS sigma S (sigma 38) factor of RNA polymerase STM3347 1.83 x yhcB putative periplasmic protein STM3559 2.05 yhhV putative cytoplasmic protein STM3809.S 1.83 ibpA small heat shock protein STM4161 2.00 putative involved in thiamine biosynthesis Down-regulated STM_PSLT014 0.52 orf6...”

YhcB / b3233 DUF1043 domain-containing inner membrane protein YhcB from Escherichia coli K-12 substr. MG1655 (see 8 papers)
ZAPG_ECOLI / P0ADW3 Z-ring associated protein G; Cell division protein ZapG; LPS assembly protein LapD from Escherichia coli (strain K12) (see 8 papers)
NP_417700 Z-ring associated protein G from Escherichia coli str. K-12 substr. MG1655
Aligns to 6:127 / 132 (92.4%), covers 99.2% of PF06295, 166.8 bits

• function: Involved in cell division, cell envelope biogenesis and cell shape maintenance (PubMed:27335665, PubMed:32323199, PubMed:33895137, PubMed:34941903). Is a key regulator of cell envelope growth, playing a crucial role in coordinating cell width, elongation and division to maintain cell envelope integrity (PubMed:34941903). Plays an important role in the lipopolysaccharide (LPS) assembly/transport (PubMed:36077106). It may regulate LpxC levels and assist MsbA-mediated LPS transport (PubMed:36077106).
  subunit: Forms homooligomers (PubMed:21210718). Interacts with proteins of the divisome, such as FtsI and FtsQ, and of the elongasome, such as RodZ and RodA (PubMed:27335665, PubMed:33895137). Also interacts several other proteins, including the shape-determining proteins MreC and MreD, the N-acetylglucosaminyl transferase MurG and the lipopolysaccharide assembly protein LapA (PubMed:27335665). It also copurifies with LapB and various proteins involved in LPS biosynthesis/transport and phospholipid biosynthesis (PubMed:36077106).
  disruption phenotype: Deletion of the gene results in morphological aberration, such as branched shape, and cell division defects, such as filamentous growth, defects in DNA segregation and generation of chromosome-less cells (PubMed:32323199, PubMed:33895137). It also shows abnormal FtsZ ring formation and aberrant septum development (PubMed:33895137). Deletion causes high sensitivities to various envelope stresses, loss of envelope stability, increased membrane permeability and causes growth defect under normal growth conditions (PubMed:32323199, PubMed:34941903). Loss of the gene results in aberrant cell size driven by the production of excess membrane phospholipids (PubMed:34941903). The knockout mutant does not grow at 45 degrees Celsius and is hypersensitive to cell wall-acting antibiotics, even in the stationary phase (PubMed:33895137). Mutant is highly susceptible to vancomycin and various anti-folate antibiotics such as such as trimethoprim, sulfanilamide and sulfamethazine (PubMed:32323199). Loss of the gene causes a reduction in LpxC amounts and LPS defects (PubMed:36077106). The deletion of both zapG and rodZ genes causes synthetic lethality (PubMed:27335665, PubMed:34941903). Deletion is also synthetically lethal with components of peptidoglycan synthesis and recycling pathways (PubMed:34941903). No change in function or assembly of the cytochrome bd-I complex (PubMed:16863643).
• Loss of YhcB results in overactive fatty acid biosynthesis.
  Stanley, mBio 2024
  • GeneRIF: Loss of YhcB results in overactive fatty acid biosynthesis.
• A New Factor LapD Is Required for the Regulation of LpxC Amounts and Lipopolysaccharide Trafficking.
  Wieczorek, International journal of molecular sciences 2022
  • GeneRIF: A New Factor LapD Is Required for the Regulation of LpxC Amounts and Lipopolysaccharide Trafficking.
• Loss of YhcB results in dysregulation of coordinated peptidoglycan, LPS and phospholipid synthesis during Escherichia coli cell growth.
  Goodall, PLoS genetics 2021
  • GeneRIF: Loss of YhcB results in dysregulation of coordinated peptidoglycan, LPS and phospholipid synthesis during Escherichia coli cell growth.
• Phenotypic characterization of a conserved inner membrane protein YhcB in Escherichia coli.
  Sung, Journal of microbiology (Seoul, Korea) 2020 (PubMed)
  • GeneRIF: Phenotypic characterization of a conserved inner membrane protein YhcB in Escherichia coli.
• Role of a putative third subunit YhcB on the assembly and function of cytochrome bd-type ubiquinol oxidase from Escherichia coli.
  Mogi, Biochimica et biophysica acta 2006 (PubMed)
  • GeneRIF: YhcB was not associated with the cytochrome bd complex; concluded that YhcB is dispensable for the assembly and function of cytochrome bd
• Protein complexes of the Escherichia coli cell envelope.
  Stenberg, The Journal of biological chemistry 2005 (PubMed)
  • GeneRIF: YhcB is a hitherto unidentified additional subunit of the cytochrome bd oxidase
• Biodistribution of ⁸⁹Zr-DFO-labeled avian pathogenic Escherichia coli outer membrane vesicles by PET imaging in chickens
  Li, Poultry science 2023
  • “...Function unknown Cell inner membrane 323 P0AE06 ACRA Cell wall/membrane/envelope biogenesis Cell inner membrane 324 P0ADW3 YHCB Function unknown Cell inner membrane 325 P0ABK2 CYDB Energy production and conversion Cell inner membrane 326 P0ABA4 ATPD Energy production and conversion Cell inner membrane 327 P0ADB1 OSME Function...”
• The antimicrobial peptide Magainin-2 interacts with BamA impairing folding of E. coli membrane proteins
  Di, Frontiers in chemistry 2022
  • “...Porin NmpC 5 P21420 Porin PhoE 5 P02932 Prolipoprotein Lpp 2 P69776 Protein YhcB 4 P0ADW3 Protein TolC 6 P02930 Protein TolB 26 P0A855 Cell division coordinator CpoB 1 P45955 Maltoporin lamB 20 P02943 Multidrug efflux pump AcrA 12 P0AE06 Protein assembly factor BamA 5 P0A940...”
• ZapG (YhcB/DUF1043), a novel cell division protein in gamma-proteobacteria linking the Z-ring to septal peptidoglycan synthesis
  Mehla, The Journal of biological chemistry 2021
  • “...(P06136, COG1589), ftsZ (P0A9A6, COG0206), rodA (P0ABG7, COG0772), rodZ (P27434, COG1426), yciS (P0ACV4, COG3771), yhcB (P0ADW3, COG3105), and yidC (P25714, COG0706). In each case, the OG based on the broadest taxonomic definition was used ( i.e. , a COG). We then assembled a tree of 197...”
• Large-scale identification of membrane proteins with properties favorable for crystallization
  Kim, Protein science : a publication of the Protein Society 2015
  • “...are predicted to UniProt Accession MW Structure? P0ABA0 P0ADW3 P64581 P0A910 P0ABJ9 P0AFC3 P0ADZ7 P02930 P27434 P0AAI3 P0ADY1 P0ABC3 P0AEH5 P0ABB8 P0ADT8 P0ABC7...”

VK055_3845 Z-ring associated protein ZapG from Klebsiella pneumoniae subsp. pneumoniae
Aligns to 6:127 / 132 (92.4%), covers 99.2% of PF06295, 166.8 bits

• Klebsiella pneumoniae causes bacteremia using factors that mediate tissue-specific fitness and resistance to oxidative stress
  Holmes, PLoS pathogens 2023
  • “...arcA -4.908 0.040 arcA transcriptional dual regulator VK055_2352 gmhB (yaeD) -4.156 0.004 D,D-heptose 1,7-bisphosphate phosphatase VK055_3845 -4.026 0.012 hypothetical protein VK055_1303 -3.669 0.017 EAL domain protein VK055_3527 -3.359 0.005 mannitol dehydrogenase Rossmann domain protein VK055_4296 recB -3.346 0.039 exodeoxyribonuclease V, beta subunit VK055_3731 crp -3.232 0.014...”

A6TEP1 Z-ring associated protein G from Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)
Aligns to 8:129 / 134 (91.0%), covers 99.2% of PF06295, 166.7 bits

• Profiling of the Klebsiella pneumoniae Phosphoproteome under Iron-Limited and Iron-Replete Conditions
  Reitzel, Microbiology resource announcements 2023
  • “...48 Type VI secretion system lipoprotein A6TD07 KPN_03077 1 T 25 Repressor of galETK operon A6TEP1 yhcB 1 Y 38 DUF1043 family protein A6TEW5 rplP 1 T 7 50S ribosomal protein L16 A6TEX3 rpsJ 1 T 44 30S ribosomal protein S10 A6TG34 glmU 2 T 29...”

S3488 hypothetical protein from Shigella flexneri 2a str. 2457T
Aligns to 6:127 / 132 (92.4%), covers 99.2% of PF06295, 165.8 bits

• Regulation of the yjjQ-bglJ operon, encoding LuxR-type transcription factors, and the divergent yjjP gene by H-NS and LeuO
  Stratmann, Journal of bacteriology 2008
  • “...S3470 S3472 S3474 S3476 S3478 S3480 S3482 S3484 S3486 S3488 S3494 S3496 S3587 S3588 S3590 S3592 S3594 S3596 S3598 S3600 S3602 S3604 S3606 S3608 S3610 S3612...”
  • “...S3478 hns::kanKD4 S3480 leuO::cat S3480 hns::kanKD4 S3488 leuO::cat S3482 hns::kanKD4 S3484 leuO::cat S3484 hns::kanKD4 S3486 leuO::cat S3486 hns::kanKD4...”

PBPRA3239 hypothetical protein from Photobacterium profundum SS9
Aligns to 6:129 / 145 (85.5%), covers 99.2% of PF06295, 159.6 bits

• Large-scale transposon mutagenesis of Photobacterium profundum SS9 reveals new genetic loci important for growth at low temperature and high pressure
  Lauro, Journal of bacteriology 2008
  • “...vector, Smr PBPRB0212 in pFL122 PBPRA0747 in pFL122 PBPRA3239 in pFL122 PBPRB1757 in pFL122 PBPRA2596 in pFL122 37 Stratagene, La Jolla, CA Invitrogen,...”
  • “...PS CS, PS FL14 FL15 PBPRA2407 PBPRA3239 DNA-binding protein H-NS Suppressor protein SuhB Guanosine-3,5-bis(diphosphate) 3-pyrophosphohydrolase SpoT Periplasmic...”

PM0688 unknown from Pasteurella multocida subsp. multocida str. Pm70
Aligns to 12:135 / 137 (90.5%), covers 99.2% of PF06295, 145.0 bits

• Identification of the crp gene in avian Pasteurella multocida and evaluation of the effects of crp deletion on its phenotype, virulence and immunogenicity
  Zhao, BMC microbiology 2016
  • “...2.00 1243606 PM0259 cytidine deaminase 2.00 1244726 PM1379 D-ribose transporter ATP binding protein 1.98 1244035 PM0688 membrane protein 1.95 1243893 ppc phosphoenolpyruvate carboxylase 1.92 1245036 tatA preprotein translocase subunit TatA 1.89 1244941 napA nitrate reductase catalytic subunit 1.83 1244769 oadA oxaloacetate decarboxylase 1.82 Evaluation of immune...”

HSM_1284 DUF1043 family protein from Histophilus somni 2336
HSM_1284 hypothetical protein from Haemophilus somnus 2336
Aligns to 12:135 / 137 (90.5%), covers 99.2% of PF06295, 142.9 bits

• Identification and initial characterization of Hfq-associated sRNAs in Histophilus somni strain 2336
  Subhadra, PloS one 2023
  • “...1417102 392 Y Y HSM_1256 HSM_1257 ND This work HS122 1464716 1464864 149 Y Y HSM_1284 HSM_1285 ND This work HS127 1580074 1580172 99 Y Y HSM_1383 HSM_1384 ND This work HS128 1597315 1597535 221 Y - HSM_1399 HSM_1400 ND This work HS131 1659113 1659217 105...”

HI1628 conserved hypothetical protein from Haemophilus influenzae Rd KW20
Aligns to 12:129 / 134 (88.1%), covers 99.2% of PF06295, 140.5 bits

• Identification of the exported proteins of the oral opportunistic pathogen Actinobacillus actinomycetemcomitans by using alkaline phosphatase fusions
  Ward, Infection and immunity 2001
  • “...1301 (136) 748 (185) HI1085 HI1603 HI1701 HI1150 HI0693 HI0370 HI1236 HI1126.1 HI1628 HI0389 89 89 66 74 89 74 24 87 58 65 79 80 49 62 78 51 44 80 46 50 TM...”

ZAPG_HAEDU / Q7VLF5 Z-ring associated protein G; Cell division protein ZapG from Haemophilus ducreyi (strain 35000HP / ATCC 700724) (see paper)
HD1495 conserved hypothetical protein from Haemophilus ducreyi 35000HP
Aligns to 12:128 / 128 (91.4%), covers 98.4% of PF06295, 136.3 bits

• function: Involved in cell division, cell envelope biogenesis and cell shape maintenance.
  subunit: Homotetramer (PubMed:33895137). In solution, is primarily monomeric but forms small amounts of stable tetramer and hexadecamer (PubMed:33895137). The crystal structure of the cytosolic region shows a coiled-coil tetramer in the asymmetric unit that is very likely to be a physiologically relevant assembly of the protein (PubMed:33895137).
• ZapG (YhcB/DUF1043), a novel cell division protein in gamma-proteobacteria linking the Z-ring to septal peptidoglycan synthesis
  Mehla, The Journal of biological chemistry 2021
  • “...light-scattering analysis Residues 31 to 128 from the YhcB ortholog in H.ducreyi (HD1495, UniProt ID Q7VLF5, Northeast Structural Genomics Consortium target HdR25) were cloned into a pET21-derived T7 expression vector between an N-terminal initiator methionine residue and a C-terminal affinity tag with sequence LEHHHHHH, and this...”
• ZapG (YhcB/DUF1043), a novel cell division protein in gamma-proteobacteria linking the Z-ring to septal peptidoglycan synthesis
  Mehla, The Journal of biological chemistry 2021
  • “...expression, purification, and light-scattering analysis Residues 31 to 128 from the YhcB ortholog in H.ducreyi (HD1495, UniProt ID Q7VLF5, Northeast Structural Genomics Consortium target HdR25) were cloned into a pET21-derived T7 expression vector between an N-terminal initiator methionine residue and a C-terminal affinity tag with sequence...”
• Activation of CpxRA in Haemophilus ducreyi primarily inhibits the expression of its targets, including major virulence determinants
  Gangaiah, Journal of bacteriology 2013
  • “...moaC, moaD, moaE bioD Cofactor biosynthesis HD1389-92h HD1480 HD1495 HD1874 Cell wall biosynthesis and remodeling, HD1400 (Continued on following page) 2.2 2.8...”
  • “...biosynthesis of molybdenum cofactor (moaACDE), biotin (bioD and HD1495), and ubiquinone (ubiF) (Table 4; see Table S3 in the supplemental material). Generation...”

PFLU_0832 DUF1043 family protein from Pseudomonas fluorescens SBW25
Aligns to 12:133 / 145 (84.1%), covers 92.7% of PF06295, 77.8 bits

• Adaptive Remodeling of the Bacterial Proteome by Specific Ribosomal Modification Regulates Pseudomonas Infection and Niche Colonisation
  Little, PLoS genetics 2016
  • “...Aspartate-semialdehyde dehydrogenase asd 11.76 4.90 8.33 UPF0312 protein PFLU_5725 8.06 8.62 8.34 Putative membrane protein PFLU_0832 14.71 4.35 9.53 Putative ABC transport system, periplasmic protein PFLU_6091 8.70 19.23 13.96 Seven NRPS genes, including three synthases for the iron scavenging siderophore pyoverdin (Pvd) were also significantly up-regulated...”

PA14_57690 hypothetical protein from Pseudomonas aeruginosa UCBPP-PA14
PA4441 hypothetical protein from Pseudomonas aeruginosa PAO1
Aligns to 12:134 / 148 (83.1%), covers 92.7% of PF06295, 75.5 bits

• Genomewide identification of genetic determinants of antimicrobial drug resistance in Pseudomonas aeruginosa
  Dötsch, Antimicrobial agents and chemotherapy 2009
  • “...PA14_16890 PA14_14910 PA14_12400 PA14_12030 PA14_08780 PA14_57690 PA14_57880 PA14_57910 PA14_62560 PA14_62770 PA14_62880 PA14_64190 PA14_68670 PA14_69810...”
• A Grad-seq View of RNA and Protein Complexes in Pseudomonas aeruginosa under Standard and Bacteriophage Predation Conditions
  Gerovac, mBio 2021
  • “...and B ). An excellent example is given by the mRNAs of the uncharacterized proteins PA4441 and PA2746a, which both showed redistribution toward fractions 10 and 11, possibly reflecting increased translational initiation by 30S ribosomes. Another example is liuR , coding for the transcriptional regulator of...”
  • “...mRNAs that move into ribosome-associated fractions. A particularly noteworthy case is the mRNA of protein PA4441, which carries a predicted DUF1043 domain that is also found in cyclic oligonucleotide-based anti-phage signaling system (CBASS) effectors ( 87 ). Put simply, after phage predation, the mRNA of a...”
• Identification of a small molecule that simultaneously suppresses virulence and antibiotic resistance of Pseudomonas aeruginosa
  Guo, Scientific reports 2016
  • “...Cb Tc Cip PA3351 flgM 4 PA3050 pyrD 4 4 4 2 2 PA5288 glnK PA4441 PA4781 PA4853 fis 2 PA2128 cupA1 2 2 PA1195 PA1098 fleS 2 PA4745 nusA 2 2 2 2 PA5198 2 2 PA0871 phhB PA0770 rnc 4 2 2 Sm, streptomycin;...”
• Analysis of Pseudomonas aeruginosa cell envelope proteome by capture of surface-exposed proteins on activated magnetic nanoparticles
  Vecchietti, PloS one 2012
  • “...U,3 hflK PA4942 Protease subunit HflK 2 U,3 PA0537 e Putative uncharacterized protein 4 U,3 PA4441 Putative uncharacterized protein 4 U,3 PA1592 e Putative uncharacterized protein 4 U,3 PA5146 Putative uncharacterized protein 4 U,3 PA4961 Putative uncharacterized protein 4 U,3 PA4842 Putative uncharacterized protein 4 U,3...”
• Genomewide identification of genetic determinants of antimicrobial drug resistance in Pseudomonas aeruginosa
  Dötsch, Antimicrobial agents and chemotherapy 2009
  • “...PA3233 PA3351 PA3647e PA3670 PA3800 PA3976 PA4005 PA4269 PA4441 PA4456 PA4459e PA4727 PA4745e PA4753 PA4853e PA5198 PA5288 PA5375 --e Gene name Growthb mexA...”
• Quorum-sensing antagonistic activities of azithromycin in Pseudomonas aeruginosa PAO1: a global approach
  Nalca, Antimicrobial agents and chemotherapy 2006
  • “...PA3842 PA3976 PA3988 PA4004 PA4006 PA4059 PA4114 PA4235 PA4263 PA4441 PA4460 PA4495 PA4525 PA4567 PA4568 exoT hcpC pilH fda trpG trpD trpC pqsA cysP pscO pcrV...”

PP1309 conserved hypothetical protein from Pseudomonas putida KT2440
Aligns to 12:133 / 145 (84.1%), covers 92.7% of PF06295, 75.3 bits

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

H7A79_RS09130 DUF1043 family protein from Neisseria musculi
Aligns to 11:121 / 194 (57.2%), covers 70.7% of PF06295, 44.8 bits

• Neisseria genes required for persistence identified via in vivo screening of a transposon mutant library
  Rhodes, PLoS pathogens 2022
  • “...impede resistance to reactive oxygen species generation by phagocytes encountered on the oral epithelium. Likewise, H7A79_RS09130, encoding a homolog of PglC showed different abundance patterns between gut and oral sites. In N . gonorrhoeae and N . meningitidis , pilin glycosylation, in which PglC plays a...”

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