PDBe 4dih

X-ray diffraction
1.8Å resolution

X-ray structure of the complex between human alpha thrombin and thrombin binding aptamer in the presence of sodium ions

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Entry contents:
2 distinct polypeptide molecules
1 distinct DNA molecule
Macromolecules (3 distinct):
Thrombin light chain Chain: L
Molecule details ›
Chain: L
Length: 36 amino acids
Theoretical weight: 4.1 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P00734 (Residues: 328-363; Coverage: 6%)
Gene name: F2
Thrombin heavy chain Chain: H
Molecule details ›
Chain: H
Length: 259 amino acids
Theoretical weight: 29.78 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P00734 (Residues: 364-622; Coverage: 43%)
Gene name: F2
Sequence domains: Trypsin
Structure domains: Trypsin-like serine proteases
Thrombin binding aptamer Chain: D
Molecule details ›
Chain: D
Length: 15 nucleotides
Theoretical weight: 4.74 KDa

Ligands and Environments


No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P1
Unit cell:
a: 43.018Å b: 44.716Å c: 52.689Å
α: 65.22° β: 85.33° γ: 69.97°
R-values:
R R work R free
0.186 0.167 0.213