Protein Info for SO4241 in Shewanella oneidensis MR-1

Name: recQ
Annotation: ATP-dependent DNA helicase RecQ (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 50 100 150 200 250 300 350 400 450 500 550 607 transmembrane" amino acids 60 to 75 (16 residues), see Phobius details TIGR01389: ATP-dependent DNA helicase RecQ" amino acids 16 to 602 (587 residues), 806.2 bits, see alignment E=1.8e-246 TIGR00614: ATP-dependent DNA helicase, RecQ family" amino acids 17 to 463 (447 residues), 590.4 bits, see alignment E=2.6e-181 PF00270: DEAD" amino acids 28 to 187 (160 residues), 88 bits, see alignment E=1.6e-28 PF00271: Helicase_C" amino acids 224 to 330 (107 residues), 80.6 bits, see alignment E=2.5e-26 PF16124: RecQ_Zn_bind" amino acids 341 to 403 (63 residues), 70 bits, see alignment E=5.8e-23 PF09382: RQC" amino acids 405 to 514 (110 residues), 126.8 bits, see alignment E=8.9e-41 PF00570: HRDC" amino acids 534 to 600 (67 residues), 82.3 bits, see alignment E=4.8e-27

Best Hits

Swiss-Prot: 60% identical to RECQ_ECOLI: ATP-dependent DNA helicase RecQ (recQ) from Escherichia coli (strain K12)

KEGG orthology group: K03654, ATP-dependent DNA helicase RecQ [EC: 3.6.4.12] (inferred from 100% identity to son:SO_4241)

MetaCyc: 60% identical to ATP-dependent DNA helicase RecQ (Escherichia coli K-12 substr. MG1655)
RXN-11135 [EC: 5.6.2.4]

Predicted SEED Role

"ATP-dependent DNA helicase RecQ" in subsystem DNA-replication or DNA repair, bacterial RecFOR pathway

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.12

Use Curated BLAST to search for 3.6.4.12 or 5.6.2.4

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

See Q8E9M8 at UniProt or InterPro

Protein Sequence (607 amino acids)

>SO4241 ATP-dependent DNA helicase RecQ (NCBI ptt file) (Shewanella oneidensis MR-1)
METQLLNTHDDPLSERLAQVFGYRDFRDGQREVIERVCRGEDCLVIMPTGGGKSLCYQLP
ALMMHGITIVVSPLISLMKDQVDSLLQTGVNAAYLNSSQPRELSLEVLRQLHLGELKLLY
VSPERLLTADFIERMQSLPLSMFAIDEAHCISQWGHDFRPEYAALGQLKQLFPHVPMMAL
TATADQATRQNICERLGINPFKLLSSFDRPNIRYTVAEKLNAANQLRQFLLQQNGSSGII
YCSSRRRVDEVAERLTLQGFHAKAYHAGMTPEERGEVQDSFLKDQIDIVVATVAFGMGIN
KSNVRFVVHYDIPKSIEAYYQETGRAGRDGLEAEAFMLFDPADIGRVRHLIEQSEPGPQQ
QVEFHKLNTMAAFAEAQTCRRQVLLHYFDESALEPCGNCDICLDPPKRYNGSEDAQKVLS
CIYRLGQRFGINHLIEVLRGSKGAAIVDRGHDKLSTWGIGKDKSHEYWLSVIRQLIHLGL
ASQDITRGSSITLNPSARPILKGEVALMLAEPRIQLTSIKRKTTQSRVPLNYDRKLFARL
KTLRREIAEEQDVPPYLVFNDATLAEMAAMMPTSPGEMLAVNGVGERKLSRFGGEFLDEI
AAYLAGE