Protein Info for PGA1_c00880 in Phaeobacter inhibens DSM 17395
Annotation: peptide deformylase Def
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
Best Hits
Swiss-Prot: 41% identical to DEF_RHIME: Peptide deformylase (def) from Rhizobium meliloti (strain 1021)
KEGG orthology group: K01462, peptide deformylase [EC: 3.5.1.88] (inferred from 51% identity to sit:TM1040_2579)Predicted SEED Role
"Peptide deformylase (EC 3.5.1.88)" in subsystem Bacterial RNA-metabolizing Zn-dependent hydrolases or Conserved gene cluster associated with Met-tRNA formyltransferase (EC 3.5.1.88)
Isozymes
Compare fitness of predicted isozymes for: 3.5.1.88
Use Curated BLAST to search for 3.5.1.88
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
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 I7DWM1 at UniProt or InterPro
Protein Sequence (169 amino acids)
>PGA1_c00880 peptide deformylase Def (Phaeobacter inhibens DSM 17395) MAVLPIRAWPDPVLSTPAKPIATPGNVETLARDMLETMYAAPGRGLAAPQVGVLIRLFVM DTTWKEGTRDPLVCVNPDIVALSVEMATMSEGCLSIKGVSLEVTRPAWVDLAWSDLHGVR HQRRFEGFAAACVQHEYDHLEGRVTFDRVSPAARAAAVATYETYLETTR