› 3hxq

X-ray diffraction
2.69Å resolution

Crystal Structure of Von Willebrand Factor (VWF) A1 Domain in Complex with DNA Aptamer ARC1172, an Inhibitor of VWF-Platelet Binding

Released:
DOI: 10.2210/pdb3hxq/pdb
PDB entry 3hxq coloured by chain, front view.
PDB entry 3hxq coloured by chain, side view.
PDB entry 3hxq coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A structural explanation for the antithrombotic activity of ARC1172, a DNA aptamer that binds von Willebrand factor domain A1.
Huang RH, Fremont DH, Diener JL, Schaub RG, Sadler JE
Structure 17 1476-84 (2009)
PMID: 19913482

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-116385 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
von Willebrand factor Chain: A
Molecule details ›
Chain: A
Length: 209 amino acids
Theoretical weight: 23.89 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P04275 (Residues: 1260-1468; Coverage: 8%)
Gene names: F8VWF, VWF
Sequence domains: von Willebrand factor type A domain
Structure domains: von Willebrand factor, type A domain
Aptamer ARC1172 Chain: B
Molecule details ›
Chain: B
Length: 42 nucleotides
Theoretical weight: 12.88 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P21212
Unit cell:
a: 117.781Å b: 48.512Å c: 62.16Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.223 0.221 0.279
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

19 review citations

Nucleic Acid Ligands With Protein-like Side Chains: Modified Aptamers and Their Use as Diagnostic and Therapeutic Agents.
Rohloff et al. (2014)
18 more

10 mentions without citation

Characterization of aptamer-protein complexes by X-ray crystallography and alternative approaches.
Ruigrok et al. (2012)
9 more