Protein Info for GFF958 in Methylophilus sp. DMC18

Annotation: Cold shock protein CspV

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 25 50 68 PF00313: CSD" amino acids 3 to 65 (63 residues), 102.8 bits, see alignment E=3.7e-34

Best Hits

Swiss-Prot: 70% identical to CSPA_BORPE: Cold shock-like protein CspA (cspA) from Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)

KEGG orthology group: K03704, cold shock protein (beta-ribbon, CspA family) (inferred from 82% identity to tbd:Tbd_0679)

Predicted SEED Role

"Cold shock protein CspA"

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

Find the best match in UniProt

Protein Sequence (68 amino acids)

>GFF958 Cold shock protein CspV (Methylophilus sp. DMC18)
MVTGSVKWFNDSKGFGFITPDNGGEDLFAHFSAIQSAGFKTLKENQRVSFEVATGPKGKQ
AANIQIIE