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X-ray diffraction
2.8Å resolution

BINDING OF CHLOROMETHYL KETONE SUBSTRATE ANALOGUES TO CRYSTALLINE PAPAIN

Released:
DOI: 10.2210/pdb5pad/pdb
PDB entry 5pad coloured by chain, front view.
PDB entry 5pad coloured by chain, side view.
PDB entry 5pad coloured by chain, top view.
Source organism: Carica papaya
Primary publication:
Binding of chloromethyl ketone substrate analogues to crystalline papain.
Drenth J, Kalk KH, Swen HM
Biochemistry 15 3731-8 (1976)
PMID: 952885

Function and Biology Details

Reaction catalysed: 
Hydrolysis of proteins with broad specificity for peptide bonds, but preference for an amino acid bearing a large hydrophobic side chain at the P2 position. Does not accept Val in P1'.
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-133546 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Papain Chain: A
Molecule details ›
Chain: A
Length: 212 amino acids
Theoretical weight: 23.45 KDa
Source organism: Carica papaya
Expression system: Not provided
UniProt:
  • Canonical: P00784 (Residues: 134-345; Coverage: 65%)
Sequence domains: Papain family cysteine protease
Structure domains: Cysteine proteinases
PHQ-GLY-PHE-GLY-CHLOROMETHYLKETONE INHIBITOR Chain: I
Molecule details ›
Chain: I
Length: 5 amino acids
Theoretical weight: 464 Da
Source organism: Carica papaya
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Spacegroup: P212121
Unit cell:
a: 45Å b: 104.3Å c: 50.8Å
α: 90° β: 90° γ: 90°
Expression system: Not provided

Quick links

Citations

17 review citations

Natural protein proteinase inhibitors and their interaction with proteinases.
Bode et al. (1992)
16 more

5 mentions without citation

Dissecting the active site of the collagenolytic cathepsin L3 protease of the invasive stage of Fasciola hepatica.
Corvo et al. (2013)
4 more