Protein Info for Sama_1619 in Shewanella amazonensis SB2B

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 1289 TIGR01967: RNA helicase HrpA" amino acids 11 to 1288 (1278 residues), 2096.1 bits, see alignment E=0 PF00270: DEAD" amino acids 84 to 230 (147 residues), 29.9 bits, see alignment E=1.1e-10 PF00271: Helicase_C" amino acids 276 to 400 (125 residues), 46.8 bits, see alignment E=7.9e-16 PF21010: HA2_C" amino acids 493 to 552 (60 residues), 30.9 bits, see alignment 8e-11 PF07717: OB_NTP_bind" amino acids 616 to 691 (76 residues), 62.2 bits, see alignment 1.1e-20 PF11898: DUF3418" amino acids 706 to 1288 (583 residues), 738.7 bits, see alignment E=1.3e-225

Best Hits

Swiss-Prot: 60% 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 60% identity to aha:AHA_2217)

MetaCyc: 60% 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 A1S620 at UniProt or InterPro

Protein Sequence (1289 amino acids)

>Sama_1619 ATP-dependent helicase HrpA (RefSeq) (Shewanella amazonensis SB2B)
MSAARHSLSRAYLQQCYQSDVARIRRELRDIERLGDETAKAAAFERLAERAEAAKAKVDA
RLSARPRIHYPDNLPVSQKRDDIAEAIAKHQVVIVAGETGSGKTTQLPKICLELGRGSRG
LIGHTQPRRLAARSVATRVADELQSPLGEAVGFKVRFADAINENSYIKLMTDGILLAELS
SDKYLNQYDTLIIDEAHERSLNIDFILGYLKQLLPRRPDLKVIITSATIDVDRFSTHFDK
APVIEVSGRTYPVETRYRPLVKDDEPDLDLMDGIFEAVDELMAEGPGDILIFMNGEREIR
DTAEQLSRRQYRDTEVLPLYARLSYGEQSKVFKSHTGRRIVLATNVAETSLTVPGIRYVI
DPGTARISRYSYRTKVQRLPIEPISQASANQRQGRCGRVGPGICIRLYEETDFLSRPEFT
DPEILRTNLASVILQMLAIGLGDIKGFPFIQPPDERHIKDGFLLLEELQAIKLKKGLPQM
TPLGRKLAHVPLDPRLARMVIEAADRGALHEALVVTSALSIQDPRERPLEKKQAADEAHS
RFADKDSDFVSLLNLWNYIKEQQKALSASQFRKLCKQEYLAYLRVREWQDLYTQVRQSVH
ELKLKLNSVPADYDSLHRALLSGLLSHVGFKDNNNEYLGARNRRFYVFPGSPLAKKGPKW
IVAAELTETSRLFARGCAKIEPEWLEELAAHLIKKQHNEPQFEANQGAVVAFENQVLYGL
TVVNRRKVQYGPINAIEAREIFIRSALAEGQLKTREAFFLHNQKLLEEVESLEHKSRRRD
ILVDEQVLFDFYNERLPEGIYNAPKLFSWWKEARRKQPELLNFNEDMLYARQTGHISKLD
FPDVWHQGNLSFALSYHFEPGAEDDGVSVHIPVALLNQVEDSGFDFLVPGLREEKCIALI
KSLPKSLRRNFVPAPDYARAAVQAMSLDLPLLESLSKQLLRMTGTRVSGEDFVLTELPKH
LLMHFKIEDDHGKLVGEGRDLDALKASLQGVVAKAIRQVAKSGIEQAGLTEWSIDDLPAQ
FQRKKGNYEVKAFPALVDEKESVAVKLFDDEHQAQKAHAQGVRRLLLINIPSPVKHLQQA
LPNKAKLAMYFNPFGQVQLLIEDIIDAAVAQILDEQRLEVRTKAGFDVARDAVRADLNSV
AEQISLKVEQILTLHNQIKKRLKGKISLDIAFAMSDIQTQLDRLVYKGFVADCGHARLSD
IIRFLKAIEHRLEKLPVDPVRDKLQLLSIHKVEQALEAQLAKVPKSQPVPEHLLEARWLI
EELRVSLFAQVLGTSVPISEKRVLLHIQQ