Protein Info for Shew_1767 in Shewanella loihica PV-4

Annotation: ATP-dependent helicase HrpA (RefSeq)

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 1295 TIGR01967: RNA helicase HrpA" amino acids 11 to 1292 (1282 residues), 2137.1 bits, see alignment E=0 PF00270: DEAD" amino acids 83 to 230 (148 residues), 29.7 bits, see alignment E=1.3e-10 PF00271: Helicase_C" amino acids 277 to 399 (123 residues), 45.3 bits, see alignment E=2.4e-15 PF21010: HA2_C" amino acids 493 to 551 (59 residues), 39.1 bits, see alignment 2.2e-13 PF07717: OB_NTP_bind" amino acids 616 to 691 (76 residues), 57.7 bits, see alignment 2.8e-19 PF11898: DUF3418" amino acids 705 to 1293 (589 residues), 754.7 bits, see alignment E=1.9e-230

Best Hits

KEGG orthology group: K03578, ATP-dependent helicase HrpA [EC: 3.6.4.13] (inferred from 58% identity to amc:MADE_02394)

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

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

See A3QDT5 at UniProt or InterPro

Protein Sequence (1295 amino acids)

>Shew_1767 ATP-dependent helicase HrpA (RefSeq) (Shewanella loihica PV-4)
MNSPRHPLSHAFLNQCFQADASRIKRRLHRLKKQADGEQKDEALAQLEEQAIAAAAKVES
RRQNRPEISYPDALPVSQKRGEIAEAIANNQVVIVAGETGSGKTTQLPKICLELGLGTRG
LIGHTQPRRLAARSVATRVAEELNSPLGEVVGFKVRFADAIKPTSYIKLMTDGILLAELS
SDKYLDQYDTIIIDEAHERSLNIDFILGYLKSVLKRRPDLKVIITSATIDVERFSKHFNN
APVIEVSGRTYPVETRYRPLVGEQDEDLDLTDGIFAAVEELMAEGPGDILIFLNGEREIR
DLADQLNKQQYRDTEVLPLYARLSYGEQSKVFKSHRGRRIVLATNVAETSLTVPGIKYVI
DPGTARISRYSYRTKVQRLPIEPISQASANQRQGRCGRVAPGICIRLYDEADFNNRPEFT
DPEILRTNLASVILQMLSIGLGDIEGFPFIQPPDARYIRDGFLLLEELQSVRKHKGQLQL
TPLGRQLASIPVDPRLARMVVQAKEYGCLHETLVITAGLSIQDPRERPMDKKQAADEAHR
RFNDKDSDFIAWVKLWDHIKEQQKALSASQFRKLCKQEFLAYLRVREWQDLYTQLRQAVH
DLKWKLNSEPADYELLHKSLLTGLLSHIGFKDKDNEYLGARNRKFFVFPGSPLAKKGPKW
IMAAEMTETSRLFARCCAKIQPEWVEPLAGHLVKKSYVEPHFEAKQGSVVALENQQLYGL
TIVNRRRVQYGPVEPVEAREIFIRSALAEGELRTKEAFFVNNRALIDDIEALEHKSRRRD
ILVDEQALVDFYEARIPEGIYNAPKLLTWWKQEKKRQPHLLDFEREQLMKRSDEHISALD
FPDSWHQGNFNLPLSYHFEPADVDDGVSVHLPVALLNQIEAQGFDWLVPGLREEKITALI
KSLPKTLRRNFVPAPDYARACLQAMANTNSSSETSLLEAMCKQLLRMSGVRISVDDFDLT
QLAPHLLINFKVEDDKGKLIAQGRELEQLKDKLQGRVTQAIRNVAESGIEQSELTQWSFG
DLPKQYEKKRGNFQVKAFPALVDNKDSVAIKLFDDEHEAGRCHKAGLQRLLLLNMPSPVK
HLQNTLPNKAKLAMYFNPFGQVQYLIDDILSAAVQQLLDEKGLDVRSAEQFEQAKDVVRQ
DLNPTAAKIALQVEEILTLYQKVKKRLKGKISLDIAFAMSDIQTQLDNLVFKGFVEQCGW
QRLSDLIRYIKAIDNRLDKLPVDPNRDRLHLHSINNVQQTLAAQLAKVPRSAPVPEALQE
ARWMIEEYRVSCFAQVLGTAYPISEKRILNRIAEA