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Crystal Structure of Recombinant gammaD364A Fibrinogen Fragment D with the Peptide Ligand Gly-Pro-Arg-Pro-Amide

X-ray diffraction
2.6Å resolution
PDB entry 3bvh coloured by chain, front view.
PDB entry 3bvh coloured by chain, side view.
PDB entry 3bvh coloured by chain, top view.
Source organisms:
Assembly composition:
hetero pentamer (preferred)
Entry contents: 4 distinct polypeptide molecules

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Assemblies

Assembly 1
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Multimeric state: hetero pentamer
Accessible surface area: 27525.59 Å2
Buried surface area: 11039.07 Å2
Dissociation area: 337.49 Å2
Dissociation energy (ΔGdiss): -0.23 kcal/mol
Dissociation entropy (TΔSdiss): 4.91 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-136013
Assembly 2 (preferred)
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Multimeric state: hetero pentamer
Accessible surface area: 27476.18 Å2
Buried surface area: 10944.35 Å2
Dissociation area: 351.62 Å2
Dissociation energy (ΔGdiss): 0.67 kcal/mol
Dissociation entropy (TΔSdiss): 4.88 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-136013

Macromolecules

Fibrinogen alpha chain
Chains: A, D
Length: 62 amino acids
Theoretical weight: 7.28 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P02671 (Residues: 148-209; Coverage: 7%)
Gene name: FGA
Pfam: Fibrinogen alpha/beta chain family
InterPro:
CATH: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Fibrinogen alpha chain in PDB entry 3bvh, assembly 2, front view.
Fibrinogen alpha chain in PDB entry 3bvh, assembly 2, side view.
Fibrinogen alpha chain in PDB entry 3bvh, assembly 2, top view.
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Fibrinogen beta chain
Chains: B, E
Length: 298 amino acids
Theoretical weight: 34.17 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P02675 (Residues: 191-488; Coverage: 65%)
Gene name: FGB
Pfam:
InterPro:
CATH:
Fibrinogen beta chain in PDB entry 3bvh, assembly 2, front view.
Fibrinogen beta chain in PDB entry 3bvh, assembly 2, side view.
Fibrinogen beta chain in PDB entry 3bvh, assembly 2, top view.
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Fibrinogen gamma chain
Chains: C, F
Length: 293 amino acids
Theoretical weight: 33.29 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P02679 (Residues: 128-420; Coverage: 69%)
Gene names: FGG, PRO2061
Pfam:
InterPro:
CATH:
SCOP: Fibrinogen coiled-coil and central regions
Fibrinogen gamma chain in PDB entry 3bvh, assembly 2, front view.
Fibrinogen gamma chain in PDB entry 3bvh, assembly 2, side view.
Fibrinogen gamma chain in PDB entry 3bvh, assembly 2, top view.
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4-mer peptide GPRP
Chains: G, H, I, J
Length: 4 amino acids
Theoretical weight: 426 Da
Source organism: synthetic construct
Expression system: Not provided
4-mer peptide GPRP in PDB entry 3bvh, assembly 2, front view.
4-mer peptide GPRP in PDB entry 3bvh, assembly 2, side view.
4-mer peptide GPRP in PDB entry 3bvh, assembly 2, top view.
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