› 2vdb

X-ray diffraction
2.52Å resolution

Structure of human serum albumin with S-naproxen and the GA module

Released:
DOI: 10.2210/pdb2vdb/pdb
PDB entry 2vdb coloured by chain, front view.
PDB entry 2vdb coloured by chain, side view.
PDB entry 2vdb coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis for the binding of naproxen to human serum albumin in the presence of fatty acids and the GA module.
Lejon S, Cramer JF, Nordberg P
Acta Crystallogr Sect F Struct Biol Cryst Commun 64 64-9 (2008)
PMID: 18259051

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-136183 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Albumin Chain: A
Molecule details ›
Chain: A
Length: 579 amino acids
Theoretical weight: 65.92 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P02768 (Residues: 30-608; Coverage: 98%)
Gene names: ALB, GIG20, GIG42, PRO0903, PRO1708, PRO2044, PRO2619, PRO2675, UNQ696/PRO1341
Sequence domains: Serum albumin family
Structure domains: Serum Albumin; Chain A, Domain 1
Peptostreptococcal albumin-binding protein Chain: B
Molecule details ›
Chain: B
Length: 55 amino acids
Theoretical weight: 6.21 KDa
Source organism: Finegoldia magna
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q51911 (Residues: 211-265; Coverage: 15%)
Gene name: pab
Sequence domains: GA-like domain
Structure domains: Albumin-binding domain

Ligands and Environments

2 bound ligands:
Ligand DKA 6 x DKA
Ligand NPS 1 x NPS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-3
Spacegroup: C2
Unit cell:
a: 190.507Å b: 49.462Å c: 79.933Å
α: 90° β: 93° γ: 90°
R-values:
R R work R free
0.236 0.234 0.28
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

3 review citations

Lessons from the crystallographic analysis of small molecule binding to human serum albumin.
Curry S. (2009)
2 more

15 mentions without citation

Pharmaceutical strategies for preventing toxicity and promoting antioxidant and anti-inflammatory actions of bilirubin.
Nocentini et al. (2022)
14 more