Family Search for PF04224 (DUF417)

PF04224.12 hits 14 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

HI0219 hypothetical protein (NCBI) from Haemophilus influenzae Rd KW20
Aligns to 9:205 / 209 (94.3%), covers 99.4% of PF04224, 271.8 bits

• In vivo transposon mutagenesis in Haemophilus influenzae
  Kraiss, Applied and environmental microbiology 1998
  • “...transcriptional direction of unknown open reading frames, designated HI0246, HI0219, and a fis gene homologue, HI0980. The fis gene product of E. coli is a...”

R2866_0369 YkgB family protein from Haemophilus influenzae R2866
Aligns to 9:205 / 209 (94.3%), covers 99.4% of PF04224, 271.8 bits

• Modified lipooligosaccharide structure protects nontypeable Haemophilus influenzae from IgM-mediated complement killing in experimental otitis media
  Langereis, mBio 2012
  • “...<1.00E16 lic2A R2866_0033 Lipooligosaccharide biosynthesis protein Lic2A 12.3 <1.00E16 galE R2866_0222 UDP-glucose 4-epimerase 10.6 1.11E16 R2866_0369 Conserved hypothetical protein 9.6 3.35E11 bolA R2866_0424 Morphology-related protein BolA R2866_0425 Lipoprotein, putative 9.4 <1.00E16 lgtF R2866_1822 UDP-glucose-lipooligosaccharide beta 1-4 glucosyltransferase 9.2 <1.00E16 lgtc R2866_0326 1,4-Alpha-galactosyltransferase (LgtC) 8.5 2.83E06 R2866_1530...”

RclC / b0301 reactive chlorine species resistance protein C from Escherichia coli K-12 substr. MG1655 (see 3 papers)
RCLC_ECOLI / P75685 Inner membrane protein RclC; Reactive chlorine resistance protein C from Escherichia coli (strain K12) (see 2 papers)
b0301 orf, hypothetical protein (VIMSS) from Escherichia coli str. K-12 substr. MG1655
EC042_RS01795 reactive chlorine species resistance protein RclC from Escherichia coli 042
Aligns to 2:182 / 197 (91.9%), covers 100.0% of PF04224, 268.5 bits

• function: Probably involved in reactive chlorine species (RCS) stress resistance.
  disruption phenotype: Mutants are more sensitive to HOCl treatment than wild-type cells.
• Elucidation of the antibacterial mechanism of the Curvularia haloperoxidase system by DNA microarray profiling
  Hansen, Applied and environmental microbiology 2004
  • “...resuming. g ND, not determined. b adjacently linked genes (b0301 to b0306) to be induced at significantly high levels. The function of these genes is unknown. A...”
  • “...0.0 0.4 0.4 0.3 1.3 0.2 0.2 0.3 0.5 0.1 0.5 0.9 b0301 b0302 b0303 b0304 b0305 a The loge ratio of transcript level 9 to 10 min after stress induction with the...”
• Overexpression of the third H-NS paralogue H-NS2 compensates fitness loss in hns mutants of the enteroaggregative Escherichia coli strain 042
  Prieto, Scientific reports 2020
  • “...22.7 EC042_RS12250 (colanic acid biosynthesis glycosyltransferase WcaI) 294.4 6.8 EC042_RS20240 (MgtC/SapB family protein) 292.1 7.3 EC042_RS01795 (reactive chlorine species resistance protein RclC) 289.9 7.0 EC042_RS12265 (GDP-mannose 4,6-dehydratase) 288.4 10.5 EC042_RS08580 (glutamate/gamma-aminobutyrateantiporter GadC) 273.3 34.7 EC042_RS03225 (LPS O-antigen length regulator) 263.4 6.1 EC042_RS01800 (DUF1471 domain-containing protein) 260.2...”

O3K_19985 reactive chlorine species resistance protein RclC from Escherichia coli O104:H4 str. 2011C-3493
Aligns to 2:182 / 197 (91.9%), covers 100.0% of PF04224, 267.5 bits

• Genomic comparison of Escherichia coli O104:H4 isolates from 2009 and 2011 reveals plasmid, and prophage heterogeneity, including shiga toxin encoding phage stx2
  Ahmed, PloS one 2012
  • “...IS interrupted (O3M_11125) IS interrupted (O3O_14470) O3K_13005 putative sulfatase IS interrupted (O3M_12965) IS interrupted (O3O_12630) O3K_19985 Predicted membrane protein IS interrupted (O3M_19970) IS interrupted (O3O_05310) O3K_20190 hypothetical protein IS interrupted (O3M_20085) IS interrupted (O3O_05195) Whole-genome Sequencing Genomic DNA was prepared using the Ultraclean Microbial DNA isolation...”

HPG27_RS02740 YkgB family protein from Helicobacter pylori G27
Aligns to 5:190 / 215 (86.5%), covers 99.4% of PF04224, 267.3 bits

• Helicobacter pylori Stress-Response: Definition of the HrcA Regulon
  Roncarati, Microorganisms 2019
  • “...lpxC, envA UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase HPG27_RS02255 2.0 horE, omp11 membrane protein HPG27_RS02575 2.4 HPG27_RS02575 transposase HPG27_RS02740 3.1 ykgB membrane protein HPG27_RS02925 1.5 flaA flagellin A HPG27_RS03550 2.4 tnpB transposase HPG27_RS03660 1.2 fliD flagellar filament capping protein FliD HPG27_RS03665 1.1 fliS flagellar chaperone protein FliS HPG27_RS03670 1.2...”

HP0565 hypothetical protein (NCBI ptt file) from Helicobacter pylori 26695
Aligns to 5:190 / 215 (86.5%), covers 99.4% of PF04224, 267.0 bits

• Analysis of core protein clusters identifies candidate variable sites conferring metronidazole resistance in Helicobacter pylori
  Chua, Gastroenterology report 2019
  • “...with metronidazole resistance. These sites included R16H/C in RdxA, D85N in the inner-membrane protein RclC (HP0565), V265I in a biotin carboxylase protein (HP0370) and A51V/T in a putative threonylcarbamoylAMP synthase (HP0918). Conclusions Our approach identified new potential mechanisms for metronidazole resistance in H. pylori that merit...”
  • “...nitroreductase RdxA (HP0954) 902 D85 38 47 10 (N) 0 33 0.021 Inner-membrane protein RclC (HP0565) 978 V265 35 47 12 (I) 1 (I) 66 0.047 Biotin carboxylase (HP0370) 993 A51 33 47 9 (V), 5 (T) 1 (V) 41 0.006 Putative threonylcarbamoylAMP synthase (HP0918) AA,...”
• High-Salt Conditions Alter Transcription of Helicobacter pylori Genes Encoding Outer Membrane Proteins
  Loh, Infection and immunity 2018
  • “...HP1254 HP1246 HP1245 HP1244 HP1192 HP1163 HP1100 HP0389 HP0549 HP0565 HP0588 0.59 0.60 0.56 0.67 0.68 0.53 0.63 0.68 0.67 0.65 0.54 0.66 0.67 0.67 0.57 0.46...”
  • “...HP1426 HP1286 HP1246 HP1245 HP1100 HP0389 HP1412 jhp1408 HP0565 HP0601 HP0630 HP0642 HP0696 HP0731 HP0751 HP0802 HP0809 HP0318 HP0291 HP0229 HP0135 HP0115...”

HPP12_0571 YkgB family protein from Helicobacter pylori P12
Aligns to 5:190 / 215 (86.5%), covers 99.4% of PF04224, 266.1 bits

• Networking and Specificity-Changing DNA Methyltransferases in Helicobacter pylori
  Yano, Frontiers in microbiology 2020
  • “...HPP12_1177 (F0F1 ATP synthase subunit), HPP12_0834 (RNA-binding protein), mdaB (antioxidant protein), flaA (flagellin), ureB (urease), HPP12_0571 (membrane protein), babB (outer membrane protein), and mcc (microcin) operon on the plasmid pHPP12 ( Supplementary Data Set S1 ). Some of these genes are involved in host interaction and...”

APECO2_RS07010 reactive chlorine species resistance protein RclC from Escherichia coli APEC O2-211
Aligns to 2:182 / 197 (91.9%), covers 99.4% of PF04224, 265.7 bits

• Role of LsrR in the regulation of antibiotic sensitivity in avian pathogenic Escherichia coli
  Yu, Poultry science 2020
  • “...1.03 APECO2_RS17500 xanQ MULTISPECIES: xanthine permease XanQ 1.60 APECO2_RS07530 flgH MULTISPECIES: flagellar L-ring protein 2.25 APECO2_RS07010 hybC Hydrogenase 2 large subunit 0.99 Table4 Differentially expressed genes whose mRNA levels (log 2 FC) displayed >0.6-fold increases in the lsrR -deficient mutant XY10 compared with the WT strain....”

SG0576 hypothetical protein (RefSeq) from Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91
Aligns to 2:182 / 186 (97.3%), covers 98.3% of PF04224, 253.1 bits

• The SPI-1-like Type III secretion system: more roles than you think
  Egan, Frontiers in plant science 2014
  • “...chaperone-binding domain (CCBD) sequence, recognized by class IB chaperones, two SPI-1 T3Es of S. glossinidius (SG0576 and SG0764) were predicted, and then confirmed to be secreted in a T3SS-dependent manner ( Costa et al., 2012 ). This CCBD sequence could be employed to detect others SPI-1...”
• A new means to identify type 3 secreted effectors: functionally interchangeable class IB chaperones recognize a conserved sequence
  Costa, mBio 2012
  • “...hypothetical ORFs (see Fig.S6A in the supplemental material). Two of these four Sodalis glossinidius proteins, SG0576 and SG0764, were stably expressed in Shigella , and both of these were secreted into the media by wild-type Shigella under conditions that induce type 3 secretion ( Fig.6A )....”
  • “...MxiM ( Shigella mxiM mutant) (see Fig.S6B in the supplemental material) ( 38 ). Last, SG0576 and SG0764 were both translocated into host cells via the Shigella T3SS in a class IB chaperone-dependent manner ( Fig.6B ). Together, these observations strongly suggest that these proteins are...”

STM0566 putative inner membrane protein (NCBI ptt file) from Salmonella typhimurium LT2
Aligns to 2:182 / 186 (97.3%), covers 98.3% of PF04224, 250.5 bits

• Species-selective killing of bacteria by antimicrobial peptide-PNAs
  Mondhe, PloS one 2014
  • “...138 1 ( yhh M d ) 14 ( dps , hyc E, pmg I, STM0566, STM0762, STM1698, STM2137, STM2481, STM3085, STM4218, thi J, upp, ydc Y, yga C) E. coli Ec1000 201 2 ( lnt d , f , rps N d , f )...”

VC1587 conserved hypothetical protein (NCBI ptt file) from Vibrio cholerae O1 biovar eltor str. N16961
Aligns to 1:146 / 146 (100.0%), covers 97.7% of PF04224, 178.9 bits

• IurV, Encoded by ORF VCA0231, Is Involved in the Regulation of Iron Uptake Genes in Vibrio cholerae
  Sachman-Ruiz, Genes 2020
  • “...membrane porin OmpU VCA02610 5.08589 <5.00E05 Hypotetical protein, Hypotetical protein VCA0262 3.93658 0.0024 Hypotetical protein VC1587 3.42537 <5.00E05 Membrane protein VCA0615 msrB 3.27937 <5.00E05 Peptidemethionine (S)Soxide reductase MsrA/Peptidemethionine (R)Soxide reductase MsrB VCA0258 3.22844 <5.00E05 Hemolysin VC2216 copG 2.95846 <5.00E05 CopG protein VCA06501 2.94231 <5.00E05 DalanineDalanine ligase,...”
• Comparative genomics reveals mechanism for short-term and long-term clonal transitions in pandemic Vibrio cholerae
  Chun, Proceedings of the National Academy of Sciences of the United States of America 2009
  • “...VCMAK757 VC8457 VCO395 VCV52 VC12129 VCTM11079 VCVL426 VCTMA21 VC1587 VCRC385 VCMZO2 VCV51 VCMZO3 VCAM19226 VC62339 O1 Inaba O1 Ogawa O1 Inaba O1 Ogawa O1...”
• Identification and characterization of a novel type III secretion system in trh-positive Vibrio parahaemolyticus strain TH3996 reveal genetic lineage and diversity of pathogenic machinery beyond the species level
  Okada, Infection and immunity 2009
  • “...strain AQ3810; VcAM19226, V. cholerae strain AM-19226; Vc1587, V. cholerae strain 1587; Vc623-39, V. cholerae strain 623-39; Yp, Yersinia pestis strain...”
• Andrimid producers encode an acetyl-CoA carboxyltransferase subunit resistant to the action of the antibiotic
  Liu, Proceedings of the National Academy of Sciences of the United States of America 2008
  • “...of V. cholerae strains N16961 and 1587 confirms that Vc1587 is resistant to andrimid (assay disks were deposited with 2.5, 5.0, and 7.5 g of andrimid,...”

MSMEG_4408 integral membrane protein (NCBI) from Mycobacterium smegmatis str. MC2 155
Aligns to 16:160 / 172 (84.3%), covers 88.0% of PF04224, 111.7 bits

• Differential expression of sigH paralogs during growth and under different stress conditions in Mycobacterium smegmatis
  Singh, Journal of bacteriology 2009
  • “...and is preceded by usfY (MSMEG_4406) and the MSMEG_4408 gene, both of which are predicted to encode membrane proteins. The monocistronic units sigH2...”

c3601 Hypothetical protein (NCBI ptt file) from Escherichia coli CFT073
2 alignments in 11:148 / 152 (90.8%), covering up to 52.0% of PF04224, 70.5 bits

• Bacterial artificial chromosome-based physical map of the rice genome constructed by restriction fingerprint analysis
  Tao, Genetics 2001 (secret)

bll6527 bll6527 (NCBI ptt file) from Bradyrhizobium japonicum USDA 110
2 alignments in 12:154 / 161 (88.8%), covering up to 46.9% of PF04224, 59.5 bits

• Reactive oxygen species-inducible ECF σ factors of Bradyrhizobium japonicum
  Masloboeva, PloS one 2012
  • “...protein bsr4431 10.7 15.9 20.0 hypothetical protein bll5855 7.5 6.2 20.6 peptide methionine sulfoxide reductase bll6527 4.7 4.7 78.3 hypothetical protein blr7043 8.5 7.0 13.5 peptide methionine sulfoxide reductase blr7044 2.9 5.4 peptide methionine sulfoxide reductase bsr7045 3.2 2.9 4.1 hypothetical protein blr7741 19.3 28.3 54.2...”

Or search for genetic data about PF04224 in the Fitness Browser