› 6qig

X-ray diffraction
2.8Å resolution

Metalloproteinase

Released:
DOI: 10.2210/pdb6qig/pdb
PDB entry 6qig coloured by chain, front view.
PDB entry 6qig coloured by chain, side view.
PDB entry 6qig coloured by chain, top view.
Source organisms:
Primary publication:
Crystal structure and substrate-induced activation of ADAMTS13.
Petri A, Kim HJ, Xu Y, de Groot R, Li C, Vandenbulcke A, Vanhoorelbeke K, Emsley J, Crawley JTB
Nat Commun 10 3781 (2019)
PMID: 31439947

Function and Biology Details

Reaction catalysed: 
The enzyme cleaves the von Willebrand factor at bond 842-Tyr-|-Met-843 within the A2 domain
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-212455 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (7 distinct):
Antibody Light Chain Chain: L
Molecule details ›
Chain: L
Length: 213 amino acids
Theoretical weight: 23.51 KDa
Source organism: Rattus norvegicus
Antibody Heavy Chain Chain: H
Molecule details ›
Chain: H
Length: 227 amino acids
Theoretical weight: 24.44 KDa
Source organism: Rattus norvegicus
A disintegrin and metalloproteinase with thrombospondin motifs 13 Chain: A
Molecule details ›
Chain: A
Length: 604 amino acids
Theoretical weight: 65.8 KDa
Source organism: Homo sapiens
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: Q76LX8 (Residues: 79-682; Coverage: 43%)
Gene names: ADAMTS13, C9orf8, UNQ6102/PRO20085
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: MAN, NAG, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
8 bound ligands:
Ligand CL 5 x CL
Ligand PEG 8 x PEG
Ligand GOL 2 x GOL
Ligand MAN 1 x MAN
Ligand FUC 1 x FUC
Ligand NAG 1 x NAG
Ligand ZN 1 x ZN
Ligand CA 3 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I24
Spacegroup: P3221
Unit cell:
a: 87.532Å b: 87.532Å c: 407.342Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.208 0.206 0.247
Expression system: Drosophila melanogaster

Quick links

Citations

10 review citations

Insights Into Immunothrombosis: The Interplay Among Neutrophil Extracellular Trap, von Willebrand Factor, and ADAMTS13.
Yang et al. (2020)
9 more

6 mentions without citation

Mechanisms of ADAMTS13 regulation.
DeYoung et al. (2022)
5 more