Protein Info for Psyr_0019 in Pseudomonas syringae pv. syringae B728a ΔmexB

Annotation: peptide deformylase

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 50 100 168 PF01327: Pep_deformylase" amino acids 4 to 153 (150 residues), 186.3 bits, see alignment E=1.4e-59 TIGR00079: peptide deformylase" amino acids 4 to 161 (158 residues), 193.9 bits, see alignment E=6.7e-62

Best Hits

Swiss-Prot: 99% identical to DEF1_PSESM: Peptide deformylase 1 (def1) from Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)

KEGG orthology group: K01462, peptide deformylase [EC: 3.5.1.88] (inferred from 99% identity to psp:PSPPH_0021)

MetaCyc: 58% identical to peptide deformylase (Escherichia coli K-12 substr. MG1655)
Peptide deformylase. [EC: 3.5.1.88]

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)

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 Q500S9 at UniProt or InterPro

Protein Sequence (168 amino acids)

>Psyr_0019 peptide deformylase (Pseudomonas syringae pv. syringae B728a ΔmexB)
MAILNILEFPDSRLRTIAKPVAMVDDGIRQLVDDMFETMYEAPGIGLAATQVNVHKRVVV
MDLSEDRSEPMVFINPEIEKLTDEMDQYQEGCLSVPGFYENVDRPQKVRVKALDRDGKPY
ELVAEGLLAICIQHECDHLNGKLFVDYLSNLKRDRIKKKLEKQHKLNA