Protein Info for SO2229 in Shewanella oneidensis MR-1

Name: hrpA
Annotation: ATP-dependent helicase HrpA (NCBI ptt file)

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 1293 transmembrane" amino acids 436 to 447 (12 residues), see Phobius details TIGR01967: RNA helicase HrpA" amino acids 13 to 1290 (1278 residues), 2294.3 bits, see alignment E=0 PF00270: DEAD" amino acids 85 to 232 (148 residues), 31.1 bits, see alignment E=4.8e-11 PF00271: Helicase_C" amino acids 281 to 402 (122 residues), 43.3 bits, see alignment E=9.7e-15 PF21010: HA2_C" amino acids 495 to 552 (58 residues), 43.6 bits, see alignment (E = 8.9e-15) PF07717: OB_NTP_bind" amino acids 618 to 693 (76 residues), 64.5 bits, see alignment 2.1e-21 PF11898: DUF3418" amino acids 707 to 1289 (583 residues), 759.9 bits, see alignment E=5.1e-232

Best Hits

Swiss-Prot: 59% identical to HRPA_HAEIN: ATP-dependent RNA helicase HrpA homolog (hrpA) from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

KEGG orthology group: K03578, ATP-dependent helicase HrpA [EC: 3.6.4.13] (inferred from 59% identity to aha:AHA_2217)

MetaCyc: 61% 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

See Q8EEY1 at UniProt or InterPro

Protein Sequence (1293 amino acids)

>SO2229 ATP-dependent helicase HrpA (NCBI ptt file) (Shewanella oneidensis MR-1)
MVLNSDKHPLSSAFLQQCFQSDASRIRRRLFKLHKEADSDKKTQELAKLAEQAQAAFEKV
EQRLKARPRINYPDNLPVSGMREDIAKAISANQVVIIAGETGSGKTTQLPKICLELGLGS
RGFIGHTQPRRLAARSVASRVAEELQSPLGEVVGFKVRFADALKSESYIKLMTDGILLAE
LTSDRYLDQYDTIIIDEAHERSLNIDFILGYLKQILKKRPDLKIIITSATIDVERFSKHF
NNAPIIEVSGRTYPVETRYRPLVQDTEADLDQIEGIFAAVDELVAEGLGDILIFMNGERE
IRDTAEQLNRRNYRDTEILPLYARLSYGEQSKVFSSHTGRRIVLATNVAETSLTVPGIRY
VIDPGTARISRYSYRTKVQRLPIEPISQASANQRQGRCGRVGPGICIRLYDEADFNNRPA
FTDPEILRTNLASVILQMLAIGLGDIAAFPFIEPPDPRHIRDGFLLLEELQAVKQQKGNI
VLTPLGRQLSQIPVDPRLARMVIESHQLGCLNEVLVIASGLSIQDPRERPMDKKQASDEA
HRRFADPQSDFVSWVNLWQHLKEQQKELSASQFRKKCRDEYLAYLRVREWQDLYTQLKQA
VHDLKWRLNDTPANYDALHRALLSGLLSHIGFKDNNNEYLGARNRKFFVFPGSPLAKKGP
KWIMAAELMETSKLFARCCAKIEPEWLEPLAAHLIKKNHLEPHFEAKQGSVIAFENQVLY
GLTVVHRRRVQYGPINPVEAREIFIRSALAEGQLQTKEAFFIANQKLLEDVEALEHKSRR
RDILVDEQVLMDFYEPRIPEGIYNAPKFFSWWKEARCTQPDLLDFNKSLLMQRSADHISA
LDFPDTWHKGNIRLQLSYHFDPAASDDGVSVHIPVALLNQIDDTDFDWLVAGMREEKCVA
LIKSLPKGLRRNFVPAPDYARACVQAMQPFSASLLDAMCKQLLRMSGTRVNPEDFDVSQM
PVHLQMNFKIEDDKGKLVAQGRVLDSLKAELQGVVAKAIRQVANKGIEKEALTEWSFGDL
PKQFEQRKGNYQVRAFPALIDNKDSVAIKLFDDEFEAEAAHRQGLRRLLLLNIPSPVKHL
QQALPNKAKLAMYFNPFGQVQILIDDIIAAAVQQLLDEKALDVRDAAQFDAAKDWVRQEL
NPTAEQIALKVEQILTLYQGIKKRTKGKISLDIAFAMSDIQSQLDQLVFKGFVEACGWKR
LADVARYLKAIETRIDKLPVDPTRDRLHMQSITKVQDALAAQLAKVPRSQPTPAALIEAR
WMIEEYRVSCFAQALGTAYPISEKRILNHILLS