Protein Info for Shew_1257 in Shewanella loihica PV-4

Annotation: DNA repair protein RadC (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 50 100 157 TIGR00608: DNA repair protein RadC" amino acids 29 to 157 (129 residues), 143.4 bits, see alignment E=4.5e-46 PF04002: RadC" amino acids 38 to 156 (119 residues), 144 bits, see alignment E=1.1e-46

Best Hits

Swiss-Prot: 67% identical to Y510_VIBCH: UPF0758 protein VC_0510 (VC_0510) from Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

KEGG orthology group: K03630, DNA repair protein RadC (inferred from 100% identity to slo:Shew_1257)

Predicted SEED Role

"DNA repair protein RadC" in subsystem DNA repair, bacterial

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 A3QCC9 at UniProt or InterPro

Protein Sequence (157 amino acids)

>Shew_1257 DNA repair protein RadC (RefSeq) (Shewanella loihica PV-4)
MHKVITLPSNSWSQTSSQILETAAGIVAERFVRGDAFCNPDATRDFLRFKLHQHQREVFG
VMMLDSQHRLIEFNEMFFGTIDAANVYPREVVKAVLLCNAAAVILAHNHPSGCAEPSAAD
RRITERLINALSTIDVPVLDHIVVGDQCVSFAERGWL