› 2ffd

X-ray diffraction
2.89Å resolution

Fibrinogen Fragment D with "A" knob peptide mimic GPRVVE

Released:
DOI: 10.2210/pdb2ffd/pdb
PDB entry 2ffd coloured by chain, front view.
PDB entry 2ffd coloured by chain, side view.
PDB entry 2ffd coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
The structure of fibrinogen fragment D with the 'A' knob peptide GPRVVE.
Betts L, Merenbloom BK, Lord ST
J Thromb Haemost 4 1139-41 (2006)
PMID: 16689770

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-136005 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (5 distinct):
Fibrinogen alpha chain Chains: A, D
Molecule details ›
Chains: A, D
Length: 66 amino acids
Theoretical weight: 7.75 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P02671 (Residues: 145-210; Coverage: 8%)
Gene name: FGA
Sequence domains: Fibrinogen alpha/beta chain family
Structure domains: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Fibrinogen beta chain Chains: B, E
Molecule details ›
Chains: B, E
Length: 313 amino acids
Theoretical weight: 35.94 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P02675 (Residues: 179-491; Coverage: 68%)
Gene name: FGB
Sequence domains:
Structure domains:
Fibrinogen gamma chain Chains: C, F
Molecule details ›
Chains: C, F
Length: 311 amino acids
Theoretical weight: 35.22 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P02679 (Residues: 122-432; Coverage: 73%)
Gene names: FGG, PRO2061
Sequence domains:
Structure domains:
GLY-PRO-ARG-VAL-VAL-GLU peptide Chains: G, H, I, J
Molecule details ›
Chains: G, H, I, J
Length: 6 amino acids
Theoretical weight: 657 Da

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, FUC
Carbohydrate polymer
1 bound ligand:
Ligand CA 4 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU300
Spacegroup: P212121
Unit cell:
a: 89.521Å b: 94.652Å c: 227.49Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.214 0.211 0.268
Expression system: Cricetulus griseus

Quick links

Citations

4 review citations

Thrombin generation and fibrin clot structure.
Wolberg AS. (2007)
3 more

4 mentions without citation

Submillisecond elastic recoil reveals molecular origins of fibrin fiber mechanics.
Hudson et al. (2013)
3 more