› 1bs7

X-ray diffraction
2.5Å resolution

PEPTIDE DEFORMYLASE AS NI2+ CONTAINING FORM

Released:
DOI: 10.2210/pdb1bs7/pdb
PDB entry 1bs7 coloured by chain, front view.
PDB entry 1bs7 coloured by chain, side view.
PDB entry 1bs7 coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structure of peptide deformylase and identification of the substrate binding site.
Becker A, Schlichting I, Kabsch W, Schultz S, Wagner AF
J Biol Chem 273 11413-6 (1998)
PMID: 9565550

Function and Biology Details

Reaction catalysed: 
Formyl-L-methionyl peptide + H(2)O = formate + methionyl peptide
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-141367 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Peptide deformylase Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 168 amino acids
Theoretical weight: 19.23 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A6K3 (Residues: 2-169; Coverage: 99%)
Gene names: JW3248, b3287, def, fms
Sequence domains: Polypeptide deformylase
Structure domains: Peptide deformylase

Ligands and Environments

2 bound ligands:
Ligand NI 3 x NI
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ELLIOTT GX-18
Spacegroup: C2
Unit cell:
a: 143.4Å b: 64Å c: 84.5Å
α: 90° β: 123° γ: 90°
R-values:
R R work R free
0.203 0.203 0.272
Expression system: Escherichia coli

Quick links

Citations

6 review citations

Nickel uptake and utilization by microorganisms.
Mulrooney et al. (2003)
5 more

3 mentions without citation

Structure and activity of human mitochondrial peptide deformylase, a novel cancer target.
Escobar-Alvarez et al. (2009)
2 more