Protein Info for CSW01_06950 in Vibrio cholerae E7946 ATCC 55056

Annotation: ATP-dependent RNA helicase HrpA

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 1200 1309 TIGR01967: RNA helicase HrpA" amino acids 24 to 1307 (1284 residues), 2110.6 bits, see alignment E=0 PF13245: AAA_19" amino acids 98 to 213 (116 residues), 27.8 bits, see alignment E=9e-10 PF00270: DEAD" amino acids 98 to 243 (146 residues), 35.8 bits, see alignment E=2.4e-12 PF00271: Helicase_C" amino acids 294 to 414 (121 residues), 42.5 bits, see alignment E=2.5e-14 PF04408: HA2_N" amino acids 477 to 509 (33 residues), 21.7 bits, see alignment (E = 6.2e-08) PF21010: HA2_C" amino acids 510 to 569 (60 residues), 48.4 bits, see alignment 4e-16 PF07717: OB_NTP_bind" amino acids 633 to 709 (77 residues), 65 bits, see alignment 2e-21 PF11898: DUF3418" amino acids 723 to 1307 (585 residues), 789.6 bits, see alignment E=7.6e-241

Best Hits

Swiss-Prot: 72% identical to HRPA_ECOLI: ATP-dependent RNA helicase HrpA (hrpA) from Escherichia coli (strain K12)

KEGG orthology group: K03578, ATP-dependent helicase HrpA [EC: 3.6.4.13] (inferred from 69% identity to aha:AHA_2217)

MetaCyc: 72% identical to ATP-dependent 3'->5' RNA helicase HrpA (Escherichia coli K-12 substr. MG1655)
5.6.2.e [EC: 5.6.2.e]

Predicted SEED Role

"ATP-dependent RNA helicase HrpA (EC 3.6.4.13)" (EC 3.6.4.13)

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.13

Use Curated BLAST to search for 3.6.4.13 or 5.6.2.e

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 (1309 amino acids)

>CSW01_06950 ATP-dependent RNA helicase HrpA (Vibrio cholerae E7946 ATCC 55056)
MTSSQPTPDSAAQPKANSAASLKKALGECLIKDRFRFSKRIDGASKIKNESARNAVFDEI
ALDIAQSMMVVEQRKQQMPKIEYPALLPVSQKRDDIAQAIAHHQVVIVAGETGSGKTTQL
PKICAELGRGKYGLIGHTQPRRLAARSVANRIAEEMETELGGFVGYKVRFTDQISDQTQI
KLMTDGILLAEIQNDRFLNQYDTIIIDEAHERSLNIDFILGYLKQLLPRRPDLKVIITSA
TIDPERFSKHFSNAPIIEVSGRTYPVEVRYRPLAGDDDSESDRDQLEGIFQAVDELCDEG
LGDILIFMNGEREIRDTADALSKRNLRDTEIVPLYARLSAGEQNKIFQPHAGRRIVLATN
VAETSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRTEEGICI
RLYSEEDFLSRPEFTDPEILRTNLASVILQMTALGLGDIEAFPFVEAPDKRNIQDGVRLL
EELGAINDQIKDPKKRLTESGKQLARLPIDPRLARMVLEASKLGCLKEVMIIASALSIQD
PRERPSDKQQSADDKHRRFNHEDSDFLTLVNLWHYIGQQQKALTSNQFRRQCKLDYLNYL
RVREWQDVYTQLHQSTREMGFKLNDEPGSYHAVHSAILVGLLSHIGMKDQEKNEYHGARN
ARFNIFPASGLFKKQPKWVMSAELVETSKLWARVVAKIEPDWIEPLAKHLSKRSYSEPHW
SKKNAAVMAYEKVMLYGIPIVPKRLVNYGTIDPVLSREIFIRSALVEGDWETKHAFFKQN
RALLAEVEELEHKSRRRDILVDDEELFQFYDQRVGTEVVSGRHFDAWWKTASRKTPDLLS
FEKEMLFKGDASHITDLDYPNFWHQGNLKLKLSYQFEPGENSDGVTVHIPLPILNQVEPH
GFDWQIPGLRHELVVSLIKSLPKTLRKNFVPAPNYADAFLARVTPFEMPLLDAMEKELRR
MTGVTVLREDWKLDQLPAHLKITYRAVDHRNRKLNESCDLHELKESLKEKVQETLSQVAD
DDIEQRDLHTWSFGELPKVYQQKRGGFEVRAYPALVDKKDSVEIKLFETEQEQLSAMRAG
QRRLILLNVPSPIKYLHANLPNKSKLGLYFNPYGKVLDLIDDCIACGVDKLIEERGGMVW
EPQAFEALKEHVRAELGDTVVEIAKQVETILTTAYNINKRLKGKVDFTMAFALSDVKAQI
EGLIFSGFATECGWKRLPDILRYMRAIERRMEKLPVDPNKDRLHMLKIESVANKYKELLN
KIPKGMAIPDNVREIRWMLEELRVSYFAQQLGTPYPVSDKRIINAIEAC