Protein Info for Shew_2457 in Shewanella loihica PV-4

Annotation: nuclease SbcCD, D subunit (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 50 100 150 200 250 300 350 380 PF00149: Metallophos" amino acids 1 to 214 (214 residues), 52 bits, see alignment E=2e-17 TIGR00619: exonuclease SbcCD, D subunit" amino acids 1 to 242 (242 residues), 187.8 bits, see alignment E=1.5e-59 PF12320: SbcD_C" amino acids 264 to 353 (90 residues), 61.4 bits, see alignment E=1.3e-20

Best Hits

KEGG orthology group: K03547, exonuclease SbcD (inferred from 100% identity to slo:Shew_2457)

Predicted SEED Role

"Exonuclease SbcD" 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)

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 A3QFS5 at UniProt or InterPro

Protein Sequence (380 amino acids)

>Shew_2457 nuclease SbcCD, D subunit (RefSeq) (Shewanella loihica PV-4)
MKFIHTSDWHIGRQLHNQSLLDDQRHVLDQIVSLAKTHEVDALIVAGDIYDRSVPPANAV
ALLDEVLNEFIALGIDVIMIAGNHDGHERLGFAARQMQASGLHIIGPLAPKVSPIRLSSG
SGDAIFYPLPYAEPATVRQQLECEASSHEEAMVELLKQVQDHDSQGLPKVVIGHCFLDGG
SESDSERPLSIGGADKISPKHFAPFDYTALGHLHGPQYKGAEQVRYSGSILKYSFSEQHQ
NKSVTLVELNAGSPANMTLLPLSPLRDVRIIEGALADLLQQGVKDPGREDYLMVRLLDKH
AILDAMGKLRSVYPNVLHLERTGLMASNQQLAIASDHIKKGELEMFKDFFTQVSGDPLNE
AQLELITQALDELHKGEAAQ