› 1y17

X-ray diffraction
2.4Å resolution

crystal structure of Aa-X-bp-II, a snake venom protein with the activity of binding to coagulation factor X from Agkistrodon acutus

Released:
DOI: 10.2210/pdb1y17/pdb
PDB entry 1y17 coloured by chain, front view.
PDB entry 1y17 coloured by chain, side view.
PDB entry 1y17 coloured by chain, top view.
Source organism: Deinagkistrodon acutus
Entry authors: Zhu Z, Liu S, Mo X, Yu X, Liang Z, Zang J, Zhao W, Teng M, Niu L

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-190107 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Snaclec anticoagulant protein subunit A Chain: A
Molecule details ›
Chain: A
Length: 129 amino acids
Theoretical weight: 14.71 KDa
Source organism: Deinagkistrodon acutus
UniProt:
  • Canonical: Q9DEF9 (Residues: 24-152; Coverage: 100%)
Sequence domains: Lectin C-type domain
Structure domains: Mannose-Binding Protein A, subunit A
Snaclec anticoagulant protein subunit B Chain: B
Molecule details ›
Chain: B
Length: 123 amino acids
Theoretical weight: 14.58 KDa
Source organism: Deinagkistrodon acutus
UniProt:
  • Canonical: Q9DEF8 (Residues: 24-146; Coverage: 100%)
Sequence domains: Lectin C-type domain
Structure domains: Mannose-Binding Protein A, subunit A

Ligands and Environments

1 bound ligand:
Ligand CA 2 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P21
Unit cell:
a: 34.944Å b: 53.894Å c: 68.087Å
α: 90° β: 98.39° γ: 90°
R-values:
R R work R free
0.19 0.18 0.236

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