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Crystal Structure and Paratope Determination of 82D6A3, an Antithrombotic Antibody Directed Against the von Willebrand factor A3-Domain

X-ray diffraction
1.9Å resolution
PDB entry 2adf coloured by chain, front view.
PDB entry 2adf coloured by chain, side view.
PDB entry 2adf coloured by chain, top view.
Source organisms:
Assembly composition:
hetero trimer (preferred)
Entry contents: 3 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero trimer
Accessible surface area: 26170.31 Å2
Buried surface area: 5861.76 Å2
Dissociation area: 887.14 Å2
Dissociation energy (ΔGdiss): 1.3 kcal/mol
Dissociation entropy (TΔSdiss): 12.65 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-233190

Macromolecules

von Willebrand factor
Chain: A
Length: 196 amino acids
Theoretical weight: 20.79 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P04275 (Residues: 1683-1874; Coverage: 7%)
Gene names: F8VWF, VWF
Pfam: von Willebrand factor type A domain
InterPro:
CATH: von Willebrand factor, type A domain
SCOP: Integrin A (or I) domain
von Willebrand factor in PDB entry 2adf, assembly 1, front view.
von Willebrand factor in PDB entry 2adf, assembly 1, side view.
von Willebrand factor in PDB entry 2adf, assembly 1, top view.
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Ig heavy chain Mem5
Chain: H
Length: 218 amino acids
Theoretical weight: 23.65 KDa
Source organism: Mus musculus
UniProt:
  • Canonical: P84751 (Residues: 1-220; Coverage: 92%)
Pfam:
InterPro:
CATH: Immunoglobulins
SCOP: C1 set domains (antibody constant domain-like)
Ig heavy chain Mem5 in PDB entry 2adf, assembly 1, front view.
Ig heavy chain Mem5 in PDB entry 2adf, assembly 1, side view.
Ig heavy chain Mem5 in PDB entry 2adf, assembly 1, top view.
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82D6A3 IgG
Chain: L
Length: 209 amino acids
Theoretical weight: 23.09 KDa
Source organism: Mus musculus
InterPro:
CATH: Immunoglobulins
SCOP:
82D6A3 IgG in PDB entry 2adf, assembly 1, front view.
82D6A3 IgG in PDB entry 2adf, assembly 1, side view.
82D6A3 IgG in PDB entry 2adf, assembly 1, top view.
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