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Cryo-EM structure of POmAb, a Type-I anti-prothrombin antiphospholipid antibody, bound to kringle-1 of human prothrombin

Electron Microscopy
3.2Å resolution
PDB entry 8uf7 coloured by chain, front view.
PDB entry 8uf7 coloured by chain, side view.
PDB entry 8uf7 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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Assembly Name: Thrombin light chain and IG-light kappa chain and IG-heavy chain
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Multimeric state: hetero trimer
Accessible surface area: 22985.75 Å2
Buried surface area: 5603.97 Å2
Dissociation area: 863.05 Å2
Dissociation energy (ΔGdiss): -4.41 kcal/mol
Dissociation entropy (TΔSdiss): 11.41 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-239904

Macromolecules

POmAb Light Chain
Chain: A
Length: 215 amino acids
Theoretical weight: 23.56 KDa
Source organism: Mus musculus
Expression system: Cricetulus griseus
POmAb Light Chain in PDB entry 8uf7, assembly 1, front view.
POmAb Light Chain in PDB entry 8uf7, assembly 1, side view.
POmAb Light Chain in PDB entry 8uf7, assembly 1, top view.
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POmAb Heavy Chain
Chain: B
Length: 218 amino acids
Theoretical weight: 23.41 KDa
Source organism: Mus musculus
Expression system: Cricetulus griseus
POmAb Heavy Chain in PDB entry 8uf7, assembly 1, front view.
POmAb Heavy Chain in PDB entry 8uf7, assembly 1, side view.
POmAb Heavy Chain in PDB entry 8uf7, assembly 1, top view.
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Prothrombin
Chain: C
Length: 579 amino acids
Theoretical weight: 65.39 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P00734 (Residues: 44-622; Coverage: 97%)
Gene name: F2
Pfam:
Prothrombin in PDB entry 8uf7, assembly 1, front view.
Prothrombin in PDB entry 8uf7, assembly 1, side view.
Prothrombin in PDB entry 8uf7, assembly 1, top view.
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