Family Search for PF04235 (DUF418)

PF04235.12 hits 12 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

ECs3044 hypothetical protein (NCBI ptt file) from Escherichia coli O157:H7 str. Sakai
Aligns to 215:375 / 385 (41.8%), covers 99.4% of PF04235, 161.2 bits

• Transcriptomic analysis of Escherichia coli O157:H7 and K-12 cultures exposed to inorganic and organic acids in stationary phase reveals acidulant- and strain-specific acid tolerance responses
  King, Applied and environmental microbiology 2010
  • “...ECs5045 ECs1716 ECs3398 ECs4148 ECs0006 ECs0251 ECs1263 ECs2557 ECs3044 ECs3978 ECs4146 ECs4425 ECs4496 ECs5042 b3283 b3700 b2571 b1422 b2531 b3067 b3649 b3783...”

YeiB / b2152 DUF418 domain-containing protein YeiB from Escherichia coli K-12 substr. MG1655
b2152 conserved inner membrane protein (NCBI) from Escherichia coli str. K-12 substr. MG1655
Aligns to 215:375 / 385 (41.8%), covers 99.4% of PF04235, 160.6 bits

• Transcriptomic analysis of Escherichia coli O157:H7 and K-12 cultures exposed to inorganic and organic acids in stationary phase reveals acidulant- and strain-specific acid tolerance responses
  King, Applied and environmental microbiology 2010
  • “...b1211 b2532 b3282 b0006 b0224 b1016 b1847 b2152 b3096 b3280 b3546 b3618 b4060 Signal transduction mechanisms Transcription Predicted methyltransferase Predicted...”
• Genetic dissection of the biochemical activities of RecBCD enzyme
  Amundsen, Genetics 1990 (secret)

y2663 hypothetical protein (NCBI ptt file) from Yersinia pestis KIM
Aligns to 219:379 / 391 (41.2%), covers 98.8% of PF04235, 157.9 bits

• Yersinia pestis kills Caenorhabditis elegans by a biofilm-independent process that involves novel virulence factors
  Styer, EMBO reports 2005
  • “...oxidase subunit II Attenuated P 1/4 0.0001 23 5F1 y2663 Putative membrane protein Wild type P 1/4 1.000 23 6B4 y3913a Putative RNase R exoribonuclease ND ND...”

SC2208 putative inner membrane protein (NCBI) from Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67
Aligns to 215:375 / 380 (42.4%), covers 99.4% of PF04235, 152.7 bits

• Use of pulsed field gel electrophoresis and transposon mutagenesis to estimate the minimal number of genes required for motility in Caulobacter crescentus
  Ely, Genetics 1989 (secret)

XF0651 transport protein (NCBI ptt file) from Xylella fastidiosa 9a5c
Aligns to 261:419 / 430 (37.0%), covers 98.8% of PF04235, 144.6 bits

• Whole-genome analysis of transporters in the plant pathogen Xylella fastidiosa
  Meidanis, Microbiology and molecular biology reviews : MMBR 2002
  • “...and 4 TMSs Undefined Undefined Undefined Undefined Undefined XF0651 XF1192 XF0406 XF0772 XF0947 XF1025 XF1245 XF1454 XF0766 XF0383 XF0666 XF0757 XF2762 XF0140...”

BA_2111 hypothetical protein predicted by GeneMark (NCBI) from Bacillus anthracis str. A2012
BA1593 membrane protein, putative (NCBI ptt file) from Bacillus anthracis str. Ames
BAS1477 membrane protein, putative (NCBI) from Bacillus anthracis str. Sterne
Aligns to 217:376 / 387 (41.3%), covers 100.0% of PF04235, 135.7 bits

• Bacillithiol: a key protective thiol in Staphylococcus aureus
  Perera, Expert review of anti-infective therapy 2015
  • “...( ytxJ ) glxA NWMN_2420 SAUSA300_2461 BA_3208 BSU38370 ( ywbC ) glxB NWMN_1416 SAUSA300_1458 BA_5452 BA_2111 BSU32660 ( yurT ) fosB NWMN_2234 SAUSA300_2280 BA_4109 BSU17840 ( yndN ) S-transferase-like (STL) superfamily genes NWMN_2591 SAUSA300_2626 BA_2700 BSU08390 ( yfiT/bstA ) BA_1354 BSU31030 ( yuaE ) BA_2379 BSU05630...”
• Identification of a protein subset of the anthrax spore immunome in humans immunized with the anthrax vaccine adsorbed preparation
  Kudva, Infection and immunity 2005
  • “...BA5578 380 BAS5217 BA5615 545 739 BAS1477 BAS1135 BA1593 BA1228 862 812d BAS5285 BAS0638 BA5681 BA0672 355 239 BAS0637 BAS1246 BAS4444 BA0670 BA1346 BA4789...”
• Identification of a protein subset of the anthrax spore immunome in humans immunized with the anthrax vaccine adsorbed preparation
  Kudva, Infection and immunity 2005
  • “...BA5604 367 BAS5183 BA5578 380 BAS5217 BA5615 545 739 BAS1477 BAS1135 BA1593 BA1228 862 812d BAS5285 BAS0638 BA5681 BA0672 355 239 BAS0637 BAS1246 BAS4444 BA0670...”

BTHUR0008_RS07395 DUF418 domain-containing protein from Bacillus thuringiensis serovar berliner ATCC 10792
Aligns to 217:376 / 387 (41.3%), covers 100.0% of PF04235, 131.8 bits

• Replicates, Read Numbers, and Other Important Experimental Design Considerations for Microbial RNA-seq Identified Using Bacillus thuringiensis Datasets
  Manga, Frontiers in microbiology 2016
  • “...threshold due to minor deviations from the set limits. For example, one of the genes BTHUR0008_RS07395 had a difference of 0.04 between the log 2-fold values from four and three replicates and thus fell below the fold-change cut-off with a difference of 0.02; yet another gene...”

SO_1396 conserved hypothetical protein (NCBI ptt file) from Shewanella oneidensis MR-1
Aligns to 233:386 / 399 (38.6%), covers 99.4% of PF04235, 120.1 bits

• Activation of an Otherwise Silent Xylose Metabolic Pathway in Shewanella oneidensis
  Sekar, Applied and environmental microbiology 2016
  • “...a mutation in an unknown membrane protein (SO_1396) resulting in a glutamine-to-histidine conversion at amino acid position 207. Homology modeling demonstrated...”
  • “...Primers used in this studya Gene/operon Q207H SO_1396 (knockout) SO_4230 (knockout) SO_0900 (cloning) SO_4673 (cloning) SO_4230 (cloning) SO_1396Q207H (cloning)...”

BACI_c51040 DUF418 domain-containing protein from Bacillus cereus biovar anthracis str. CI
Aligns to 189:340 / 347 (43.8%), covers 99.4% of PF04235, 108.4 bits

• The genome of a Bacillus isolate causing anthrax in chimpanzees combines chromosomal properties of B. cereus with B. anthracis virulence plasmids
  Klee, PloS one 2010
  • “...in PCR * BACI_c22180 (638 bp) BACI_c24230 (535 bp) BACI_c24450 (300 bp) BACI_c43090 (745 bp) BACI_c51040 (327 bp) BACI_c54520 (604 bp) BMA_pCI1400090 (448 bp) BACI_c22220 (677 bp) BACI_c24340 (619 bp) BACI_c24500 (438 bp) BACI_c43150 (748 bp) BACI_c51070 (354 bp) BACI_c54560 (756 bp) BACI_pCI1400190 (445 bp) BACI_c24550...”

BMB171_C4385 DUF418 domain-containing protein from Bacillus thuringiensis BMB171
Aligns to 164:334 / 340 (50.3%), covers 98.8% of PF04235, 107.3 bits

• The two-component signal transduction system YvcPQ regulates the bacterial resistance to bacitracin in Bacillus thuringiensis
  Zhang, Archives of microbiology 2016 (PubMed)
  • “...the promoter regions of genes yvcR (BMB171_C4100), BMB171_C4385, kapD (BMB171_C4525) and BMB171_ C4835 in Bacillus thuringiensis BMB171 which is a...”
  • “...the 200-bp promotor fragments of genes yvcR, BMB171_C4385, kapD (BMB171_C4525), BMB171_C4835 and yvcS1S2 (PyvcR, PC4385, PkapD, PC4835 and PyvcS1S2,...”

BC4744 hypothetical Membrane Spanning Protein (NCBI ptt file) from Bacillus cereus ATCC 14579
Aligns to 164:334 / 340 (50.3%), covers 98.8% of PF04235, 105.9 bits

• Response of Bacillus cereus ATCC 14579 to challenges with sublethal concentrations of enterocin AS-48
  Grande, BMC microbiology 2009
  • “...specific overexpression of the BC4207 membrane protein, we randomly selected two membrane proteins (BC4147 and BC4744) and introduced them into B. cereus ATCC14579 similar to the BC4207 protein. Expression of these proteins resulted in no significant growth difference in the presence of various amounts of AS-48...”
  • “...cDNA using the 2 -Ct method [ 34 ]. Overexpression of the BC4207, BC4147 and BC4744 proteins BC4207, BC4147 and BC4744 genes were amplified with oMJGB3 (5'-GATCGAAGCTTACGGTAAATAACTTATTACAG-3') and oMJGB4 (5'-GATCCAGGCATGCTCACGTCAACAATTAACTTT-3'), oBCE9 (5'-CATATAGGAGTAATGATATG-3') and oBCE10 (5'-AGAGAAGATACGGCATAG-3'), oBCE11 (5'-TACAAGGAGTTGCTTTATGG-3') and oBCE11 (5'-TTATATCGGCGCAACTAC-3'), respectively. PCR products were cloned into...”

cg2095 hypothetical protein (RefSeq) from Corynebacterium glutamicum ATCC 13032
Aligns to 260:430 / 468 (36.5%), covers 100.0% of PF04235, 68.4 bits

• Target genes, consensus binding site, and role of phosphorylation for the response regulator MtrA of Corynebacterium glutamicum
  Brocker, Journal of bacteriology 2011
  • “...encoding a protein of unknown function, or cg2095 (NCgl1837), encoding a hypothetical membrane protein. By DNA-protein interaction studies, we provided evidence...”
  • “...cg1562 cg1612 cg1665 cg1671 cg1942 cg1943 cg2052 cg2054 cg2095 cg2096 cg2236 cg2500 cg2719 cg2720 cg2747 cg2777 cg3254 cg3395 Alternate designation VOL. 193,...”
• Acetohydroxyacid synthase, a novel target for improvement of L-lysine production by Corynebacterium glutamicum
  Blombach, Applied and environmental microbiology 2009
  • “...cg1085 cg1087 cg1090 cg1229 cg1279 cg1365 cg1367 cg1419 cg1998 cg2095 cg2438 cg2477 cg3256 0.49 0.45 3.30 2.95 2.38 2.09 2.15 2.68 2.21 2.71 0.45 0.44 0.47 0.47...”

Or search for genetic data about PF04235 in the Fitness Browser