PDBe 1icf

X-ray diffraction
2Å resolution

CRYSTAL STRUCTURE OF MHC CLASS II ASSOCIATED P41 II FRAGMENT IN COMPLEX WITH CATHEPSIN L

Released:

Function and Biology Details

Reaction catalysed:
Specificity close to that of papain. As compared to cathepsin B, cathepsin L exhibits higher activity toward protein substrates, but has little activity on Z-Arg-Arg-NHMec, and no peptidyl-dipeptidase activity. 
Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assemblies composition:
hetero trimer (preferred)
hetero hexamer
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
HLA class II histocompatibility antigen gamma chain Chains: I, J
Molecule details ›
Chains: I, J
Length: 65 amino acids
Theoretical weight: 7.26 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P04233 (Residues: 210-274; Coverage: 22%)
Gene names: CD74, DHLAG
Structure domains: Invariant Chain; Chain I
Cathepsin L1 heavy chain Chains: A, C
Molecule details ›
Chains: A, C
Length: 175 amino acids
Theoretical weight: 19.1 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P07711 (Residues: 114-288; Coverage: 55%)
Gene names: CTSL, CTSL1
Structure domains: Cysteine proteinases
Cathepsin L1 light chain Chains: B, D
Molecule details ›
Chains: B, D
Length: 42 amino acids
Theoretical weight: 4.78 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P07711 (Residues: 292-333; Coverage: 13%)
Gene names: CTSL, CTSL1
Structure domains: Cysteine proteinases. Chain C

Ligands and Environments

1 bound ligand:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P21
Unit cell:
a: 62.592Å b: 80.594Å c: 64.245Å
α: 90° β: 96.77° γ: 90°
R-values:
R R work R free
0.182 0.182 0.213