Protein Info for CSW01_09445 in Vibrio cholerae E7946 ATCC 55056

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 1100 1155 signal peptide" amino acids 1 to 15 (15 residues), see Phobius details PF17757: UvrB_inter" amino acids 132 to 219 (88 residues), 90.9 bits, see alignment 1.6e-29 TIGR00580: transcription-repair coupling factor" amino acids 149 to 1084 (936 residues), 1151.9 bits, see alignment E=0 PF21132: MFD_D3" amino acids 378 to 452 (75 residues), 91.9 bits, see alignment 6.9e-30 PF02559: CarD_TRCF_RID" amino acids 482 to 538 (57 residues), 71 bits, see alignment 2.4e-23 PF00270: DEAD" amino acids 607 to 769 (163 residues), 98.2 bits, see alignment E=1.6e-31 PF04851: ResIII" amino acids 607 to 763 (157 residues), 47.8 bits, see alignment E=5.5e-16 PF00271: Helicase_C" amino acids 808 to 911 (104 residues), 68.5 bits, see alignment E=2.1e-22 PF03461: TRCF" amino acids 1012 to 1102 (91 residues), 98.6 bits, see alignment E=7.8e-32

Best Hits

KEGG orthology group: K03723, transcription-repair coupling factor (superfamily II helicase) [EC: 3.6.4.-] (inferred from 73% identity to vsa:VSAL_II0696)

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)

Compare to protein 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

Find the best match in UniProt

Protein Sequence (1155 amino acids)

>CSW01_09445 transcription-repair coupling factor (Vibrio cholerae E7946 ATCC 55056)
MTTHSLLSLFSAQGAGDKKAIGNLHGASLALAIAELANAHTSHTLLAVPDPQTALKLLHE
VEQFSHSEVALFPDWETLPYDNFSPHQDIISDRISRLYQLPSLTRGITIVPVSTLLQRQS
PRDFLLQHTLIVKRGDHFSLDKLRLQLENSSYRHVDQVFGPGEYASRGSILDLFPMGSSD
PFRIDFFDDEIDTIRTFDPDNQRSIAEMDEIRLLPAHEFPTTAAAIEEFRNRWRQRFEAR
REPESVYSQVSKGTWPAGIEYWQPLFFEHSETLFDYLPANSQLLVVGELEKAIDQFLTDV
DYRYDQRNIDPLRPLLPPNELWLRKDELFAHFKTLPQVQLTSSPIELRAGRMNAQVQPLP
VLAVEHQNKEPLAALRQFSEQFTGKIIFSVESEGRREALLELLQRIKLRPQSQNDFSLAC
QQTEKYSLVLGSAERGFIYGDNQVALICESDLLGDRVIQRRRKKDRKNVTNSDAVIRNLA
ELKPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEYQNEAKLYVPVSSLNLISRYSGG
AEEAAQLHKLGGEAWVKARRKAAEKVRDVAAELLDVYAKREIKPGFKFHLDREQYATFKA
TFPFEETDDQAMAINAVLSDMCQAKAMDRLVCGDVGFGKTEVAMRAAFVATDNGKQVAVL
VPTTLLAQQHFENFRDRFANLPIRVEVLSRFKSAKEQKQILQDVADGKVDILVGTHKLLS
SEIRFADLGLLIVDEEHRFGVRQKEKVKAMRADVDILTLTATPIPRTLNMAMSGMRDLSI
IATPPARRLAIKTFVRQSEDSVIREAVLREIMRGGQVYFLHNQVETIDKVAADLEKLVPE
ARITVAHGQMRERELEKVMNDFYHQRFNLLVCTTIIETGIDVPTANTIIMDRADSLGLAQ
LHQLRGRVGRSHHQAYAYLLTPPPKAITKDAVKRLEAIASLEDLGAGFTLATHDLEIRGA
GELLGEEQSGQIQSVGFTLYMEMLEQAVEALKSGKEPALDDLLREQTEVEMRLPALLPEE
YIPDINTRLSMYKQIASVASKDELAELKVELIDRFGKLPDAALNLLAIAELKLNAMRLKV
RKIEAHERGGYVEFYPNADINPVFLVKLLQSQPKLLAMDGPTKLKFTLPLVERSARIQFV
ADMLKNFQQNVLPAR