Protein Info for Atu0061 in Agrobacterium fabrum C58

Annotation: ATP-dependent DNA helicase

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 50 100 150 200 250 300 350 400 450 500 550 602 TIGR00614: ATP-dependent DNA helicase, RecQ family" amino acids 7 to 455 (449 residues), 502.5 bits, see alignment E=1.2e-154 TIGR01389: ATP-dependent DNA helicase RecQ" amino acids 7 to 597 (591 residues), 786.2 bits, see alignment E=1.9e-240 PF00270: DEAD" amino acids 22 to 178 (157 residues), 84 bits, see alignment E=2.6e-27 PF00271: Helicase_C" amino acids 218 to 323 (106 residues), 75.6 bits, see alignment E=9.2e-25 PF16124: RecQ_Zn_bind" amino acids 334 to 395 (62 residues), 60.5 bits, see alignment E=5.5e-20 PF09382: RQC" amino acids 398 to 509 (112 residues), 113.9 bits, see alignment E=9.6e-37 PF00570: HRDC" amino acids 529 to 595 (67 residues), 87.3 bits, see alignment E=1.3e-28

Best Hits

Swiss-Prot: 49% 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 atu:Atu0061)

MetaCyc: 49% 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)

Search 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 A9CKR9 at UniProt or InterPro

Protein Sequence (602 amino acids)

>Atu0061 ATP-dependent DNA helicase (Agrobacterium fabrum C58)
MNADPLNILKAVYGYDAFRGRQGEIIQHVVAGNNAFVLMPTGGGKSLCYQIPALAREGMG
LVVSPLIALMVDQVAALRQAGVRAEALNSDLSPEERRTLWRDVRAGNVDILYAAPETLLK
PDVLDALQSIDLSLIAVDEAHCLSQWGHDFRPPYRQLDMLIARFPNTPRMALTATADEPT
RAEILGHLAIDEADAFIAGFDRPNIRYAIMEKDNPRTQLKRFLNGRENESGIVYCLSKRK
VEETAAWLREEGRDALPYHAGMDKAAREENQTRFQHGEAVIIVATVAFGMGIDKPDVRFV
VHIDLPGSIEAYYQETGRAGRDGLPSDVLMLYGYEDIALRNRFIEESDAADQRKYMERQK
LDALLGLAETAGCRRQVLLSYFGDRCEPCGNCDTCSSPPDLFEGAIAAQKLLSCIYRTGE
RFGQAYVISVLLGAQDERITKFGHDSITTYGIGKEHDNRTWRAILRQLVALRLIEVDLSG
HGGLSISENGRRFLREKPSLMLRIPSAPRSTRRDAPRNAMSTALPEADRGLFEALRAKRM
EIARAQNVPPYVIFHDKTLIELAAARPASAKEMAQIAGVGQTKLERYGPAFLDTIMQHAA
GE