› 6fak

X-ray diffraction
1.9Å resolution

Human afamin orthorhombic crystal form by controlled hydration

Released:
DOI: 10.2210/pdb6fak/pdb
PDB entry 6fak coloured by chain, front view.
PDB entry 6fak coloured by chain, side view.
PDB entry 6fak coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Controlled dehydration, structural flexibility and gadolinium MRI contrast compound binding in the human plasma glycoprotein afamin.
Naschberger A, Juyoux P, von Velsen J, Rupp B, Bowler MW
Acta Crystallogr D Struct Biol 75 1071-1083 (2019)
PMID: 31793901

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-155116 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Afamin Chain: A
Molecule details ›
Chain: A
Length: 586 amino acids
Theoretical weight: 67.64 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P43652 (Residues: 22-599; Coverage: 100%)
Gene names: AFM, ALB2, ALBA
Sequence domains: Serum albumin family

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
10 bound ligands:
Ligand NAG 2 x NAG
Ligand CL 1 x CL
Ligand NA 1 x NA
Ligand ACT 1 x ACT
Ligand P6G 2 x P6G
Ligand PG4 2 x PG4
Ligand PGE 2 x PGE
Ligand PEG 4 x PEG
Ligand PG6 1 x PG6
Ligand EDO 2 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE MASSIF-1
Spacegroup: P21212
Unit cell:
a: 109.773Å b: 113.325Å c: 48.796Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.179 0.177 0.219
Expression system: Spodoptera frugiperda

Quick links

Citations

4 mentions without citation

Identification of Blood Transport Proteins to Carry Temoporfin: A Domino Approach from Virtual Screening to Synthesis and In Vitro PDT Testing.
Marconi et al. (2023)
3 more