› 4eb1

X-ray diffraction
2.8Å resolution

Hyperstable in-frame insertion variant of antithrombin

Released:
DOI: 10.2210/pdb4eb1/pdb
PDB entry 4eb1 coloured by chain, front view.
PDB entry 4eb1 coloured by chain, side view.
PDB entry 4eb1 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Type II antithrombin deficiency caused by a large in-frame insertion: structural, functional and pathological relevance.
Martínez-Martínez I, Johnson DJ, Yamasaki M, Navarro-Fernández J, Ordóñez A, Vicente V, Huntington JA, Corral J
J Thromb Haemost 10 1859-66 (2012)
PMID: 22758787

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-133776 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Antithrombin-III Chain: I
Molecule details ›
Chain: I
Length: 440 amino acids
Theoretical weight: 49.93 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P01008 (Residues: 33-240, 243-464; Coverage: 100%)
Gene names: AT3, PRO0309, SERPINC1
Sequence domains: Serpin (serine protease inhibitor)
Structure domains:
Antithrombin-III Chain: L
Molecule details ›
Chain: L
Length: 432 amino acids
Theoretical weight: 49.1 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P01008 (Residues: 33-464; Coverage: 100%)
Gene names: AT3, PRO0309, SERPINC1
Sequence domains: Serpin (serine protease inhibitor)
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
1 bound ligand:
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: P21
Unit cell:
a: 69.75Å b: 101.75Å c: 88.81Å
α: 90° β: 105.42° γ: 90°
R-values:
R R work R free
0.201 0.198 0.255
Expression system: Homo sapiens

Quick links

Citations

15 citation in other articles

Impact of the type of SERPINC1 mutation and subtype of antithrombin deficiency on the thrombotic phenotype in hereditary antithrombin deficiency.
Luxembourg et al. (2014)
14 more

2 mentions without citation

Bioinformatics studies on a function of the SARS-CoV-2 spike glycoprotein as the binding of host sialic acid glycans.
Robson B. (2020)
1 more