› 2ifw

X-ray diffraction
2.3Å resolution

Crystal structure of scytalido-glutamic peptidase with a transition state analog inhibitor

Released:
DOI: 10.2210/pdb2ifw/pdb
Model geometry
Fit model/data
PDB entry 2ifw coloured by chain, front view.
PDB entry 2ifw coloured by chain, side view.
PDB entry 2ifw coloured by chain, top view.
Source organism: Scytalidium lignicola
Primary publication:
Crystal structure of scytalidoglutamic peptidase with its first potent inhibitor provides insights into substrate specificity and catalysis.
Pillai B, Cherney MM, Hiraga K, Takada K, Oda K, James MN
J Mol Biol 365 343-61 (2007)
PMID: 17069854

Function and Biology Details

Reaction catalysed: 
Hydrolysis of proteins with broad specificity, cleaving 24-Phe-|-Phe-25, but not 15-Leu-|-Tyr-16 and 25-Phe-|-Tyr-26 in the B chain of insulin.
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-147330 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Scytalidopepsin B Chains: A, B
Molecule details ›
Chains: A, B
Length: 206 amino acids
Theoretical weight: 21.55 KDa
Source organism: Scytalidium lignicola
Expression system: Escherichia coli
UniProt:
  • Canonical: P15369 (Residues: 55-260; Coverage: 86%)
Sequence domains: Peptidase A4 family
Structure domains: Peptidase G1
Heptapeptide Chains: C, D
Molecule details ›
Chains: C, D
Length: 7 amino acids
Theoretical weight: 928 Da
Source organism: Scytalidium lignicola
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand ACY 2 x ACY
Ligand GOL 2 x GOL
1 modified residue:
Ligand AAR 2 x AAR

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: ALS BEAMLINE 8.3.1
Spacegroup: P212121
Unit cell:
a: 46.563Å b: 55.211Å c: 151.672Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.265 0.221 0.265
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

5 review citations

New families of carboxyl peptidases: serine-carboxyl peptidases and glutamic peptidases.
Oda K. (2012)
4 more

4 mentions without citation

Inhibition of a secreted glutamic peptidase prevents growth of the fungus Talaromyces emersonii.
O'Donoghue et al. (2008)
3 more