Protein Info for PS417_07635 in Pseudomonas simiae WCS417

Annotation: transcription-repair coupling factor

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 100 200 300 400 500 600 700 800 900 1000 1149 PF17757: UvrB_inter" amino acids 129 to 217 (89 residues), 96.2 bits, see alignment 3.5e-31 TIGR00580: transcription-repair coupling factor" amino acids 147 to 1080 (934 residues), 1105.8 bits, see alignment E=0 PF21132: MFD_D3" amino acids 376 to 450 (75 residues), 91.5 bits, see alignment 9.5e-30 PF02559: CarD_TRCF_RID" amino acids 479 to 534 (56 residues), 65.8 bits, see alignment 1.1e-21 PF00270: DEAD" amino acids 604 to 766 (163 residues), 96.6 bits, see alignment E=5.1e-31 PF04851: ResIII" amino acids 604 to 760 (157 residues), 43.2 bits, see alignment E=1.5e-14 PF00271: Helicase_C" amino acids 803 to 908 (106 residues), 67.5 bits, see alignment E=4.2e-22 PF03461: TRCF" amino acids 1008 to 1099 (92 residues), 99.7 bits, see alignment E=3.3e-32

Best Hits

Swiss-Prot: 57% identical to MFD_HAEIN: Transcription-repair-coupling factor (mfd) from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

KEGG orthology group: K03723, transcription-repair coupling factor (superfamily II helicase) [EC: 3.6.4.-] (inferred from 55% identity to aat:D11S_0770)

Predicted SEED Role

"Transcription-repair coupling factor" in subsystem DNA-replication or Transcription factors bacterial

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.-

Use Curated BLAST to search for 3.6.4.-

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See A0A1N7UHW3 at UniProt or InterPro

Protein Sequence (1149 amino acids)

>PS417_07635 transcription-repair coupling factor (Pseudomonas simiae WCS417)
MPVLRLPLLPAAAGKQHWGNLPGAALSLAIAEAASAAKRFTLLLTADSQSAERLEQELSF
FAPDLPVLHFPDWETLPYDLFSPHQDIISQRIASLYRLPELAHGVLVVPITTALHRLAPT
KFLLGSSLVLDIGQKLDVEQMRTRLEASGYRCVDTVYEHGEFAVRGALIDLFPMGSKLPY
RIDLFDDEIETLRTFDPENQRSIDKVDSVKLLPAREFPLQKDAVTRFKARFRERFDVDFR
RCPIFQDLSSGITPAGIEYYLPLFFDETSTLFDYLPQDTQVFSLPGIEQAAENFWNDVRN
RYEERRVDPSRPLLPPAELFLPVEDCFARLKSWPRVVASQQDVETGAGRERFPAATLPDL
AIQAKATQPLEALSNFLGDFPGRVLFTAESAGRREVLLELLERLKLRPKTVDSWPDFVKS
KERLAITIAPLDEGLLLDDPALALIAESPLFGQRVMQRRRREKRADANNDAVIKNLTELR
EGAPVVHIDHGVGRYLGLQTLEIDNQAAEFLTMEYAEGAKLYVPVANLHLIARYTGSDDA
LAPLHRLGSETWQKAKRKAAEQVRDVAAELLDIYARRAAREGYAFADPKADYATFSAGFA
FEETPDQQTTIEAVRADMLAPKPMDRLVCGDVGFGKTEVAMRAAFIAVHGGKQVAILVPT
TLLAQQHYNSFRDRFADWPVTVEVMSRFKSAKEVNAAIADLAEGKIDIVIGTHKLLSDDV
KIKNLGLVIIDEEHRFGVRQKEQLKALRSEVDILTLTATPIPRTLNMAVSGMRDLSIIAT
PPARRLSVRTFVMEQNKSTVKEALLRELLRGGQVYYLHNDVKTIEKCAADLAELVPEARI
AIGHGQMRERELEQVMSDFYHKRFNVLIASTIIETGIDVPSANTIIIERADKFGLAQLHQ
LRGRVGRSHHQAYAYLLTPPRQQITSDAEKRLEAIANTQDLGAGFVLATNDLEIRGAGEL
LGDGQSGQIQAVGFTLYMEMLERAVKAIRKGEQPNLDQPLGGGPEINLRLPALIPEEYLP
DVHARLILYKRIASATDEEGLKDLQVEMIDRFGLLPEPTKNLVRLTLLKLQAEQLGIKKV
DAGPQGGRIEFEAQTPVDPLVLIKLIQGQPNRYKFEGATLFKFMVPMERAEERFNTLEAL
FERLIPKSA