Protein Info for Sama_0333 in Shewanella amazonensis SB2B

Annotation: ATP-dependent DNA helicase RecQ (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 50 100 150 200 250 300 350 400 450 500 550 607 TIGR01389: ATP-dependent DNA helicase RecQ" amino acids 15 to 602 (588 residues), 802.8 bits, see alignment E=1.8e-245 TIGR00614: ATP-dependent DNA helicase, RecQ family" amino acids 16 to 463 (448 residues), 602.3 bits, see alignment E=6.3e-185 PF00270: DEAD" amino acids 27 to 186 (160 residues), 86.8 bits, see alignment E=3.6e-28 PF00271: Helicase_C" amino acids 224 to 330 (107 residues), 81.6 bits, see alignment E=1.2e-26 PF16124: RecQ_Zn_bind" amino acids 341 to 402 (62 residues), 71.2 bits, see alignment E=2.4e-23 PF09382: RQC" amino acids 405 to 513 (109 residues), 128.4 bits, see alignment E=2.8e-41 PF00570: HRDC" amino acids 534 to 600 (67 residues), 76.2 bits, see alignment E=4e-25

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 saz:Sama_0333)

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 A1S2D8 at UniProt or InterPro

Protein Sequence (607 amino acids)

>Sama_0333 ATP-dependent DNA helicase RecQ (RefSeq) (Shewanella amazonensis SB2B)
MEQPASEHTQDPLSHCLQQVFGYRDFRPGQREVMTRVCQGEDCLVIMPTGGGKSLCYQVP
ALVLPGVTLVVSPLISLMKDQVDSLIQSGVAAAYLNSSQPREQAIEVLRQLRFGELKLLY
VSPERLLQGDFLSRLDELHISLFAVDEAHCISEWGHDFRPEYAALGQLKQRFPHVPVMAL
TATADEATRSSICERLGIQPFQHLASFDRPNIRYTVAEKLNAANQLRQFIQSQKGANGIV
YCSSRRRVDEVAERLRQQGFYAEGYHAGMTQDERASVQDRFLKDQIDVVVATVAFGMGIN
KSNVRFVVHYDIPKSIESYYQETGRAGRDGLDAEALLLFDPADIGRVRHLIEQQEPGPQQ
QVEFHKLYSMAAFAEAQTCRRQVLLHYFGEAANEPCGNCDICIDPPKRYNGTEDAQKVLS
CIYRLNQRFGVNHLIEVLRGSKAASVVDRGHDKLSTWGIGKEKSTEYWLSVTRQLIHLGL
ASQDITRGSSVRLNSAARPVLKGEVALMLAEPRLSLSDVPRKRTSSRTPQNYDRKLFARL
KNLRRTIAEEQDVPPYLVFNDATLAEMAWMLPKSEAELLAVNGVGERKLARFGGEFLDEI
AAYISGD