› 2erp

X-ray diffraction
2.95Å resolution

Crystal structure of vascular apoptosis-inducing protein-1(inhibitor-bound form)

Released:
DOI: 10.2210/pdb2erp/pdb
PDB entry 2erp coloured by chain, front view.
PDB entry 2erp coloured by chain, side view.
PDB entry 2erp coloured by chain, top view.
Source organism: Crotalus atrox
Primary publication:
Crystal structures of VAP1 reveal ADAMs' MDC domain architecture and its unique C-shaped scaffold.
Takeda S, Igarashi T, Mori H, Araki S
EMBO J 25 2388-96 (2006)
PMID: 16688218

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-190116 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Zinc metalloproteinase-disintegrin-like VAP1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 427 amino acids
Theoretical weight: 47.38 KDa
Source organism: Crotalus atrox
UniProt:
  • Canonical: Q9DGB9 (Residues: 184-610; Coverage: 72%)
Sequence domains:
Structure domains: Collagenase (Catalytic Domain)

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
4 bound ligands:
Ligand ZN 2 x ZN
Ligand CA 4 x CA
Ligand 3CO 1 x 3CO
Ligand GM6 2 x GM6
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P212121
Unit cell:
a: 86.345Å b: 91.379Å c: 136.039Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.21 0.208 0.264

Quick links

Citations

34 review citations

The ADAM metalloproteinases.
Edwards et al. (2008)
33 more

4 mentions without citation

ADAM and ADAMTS Family Proteins and Snake Venom Metalloproteinases: A Structural Overview.
Takeda S. (2016)
3 more