› 4qaf

X-ray diffraction
1.8Å resolution

Crystal structure of an engineered lipocalin (Anticalin) in complex with VEGF(8-109)

Released:
DOI: 10.2210/pdb4qaf/pdb
PDB entry 4qaf coloured by chain, front view.
PDB entry 4qaf coloured by chain, side view.
PDB entry 4qaf coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Giese T, Skerra A

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-147431 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Lipocalin-1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 152 amino acids
Theoretical weight: 16.18 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P31025 (Residues: 23-174; Coverage: 96%)
Gene names: LCN1, VEGP
Sequence domains: Lipocalin / cytosolic fatty-acid binding protein family
N-VEGF Chains: C, D
Molecule details ›
Chains: C, D
Length: 112 amino acids
Theoretical weight: 13.15 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P15692 (Residues: 214-315; Coverage: 26%)
Gene names: VEGF, VEGFA
Sequence domains: VEGF heparin-binding domain
Structure domains: Cystine-knot cytokines

Ligands and Environments

3 bound ligands:
Ligand OMA 2 x OMA
Ligand SO4 3 x SO4
Ligand ACT 1 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.1
Spacegroup: P3221
Unit cell:
a: 88.21Å b: 88.21Å c: 103.421Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.205 0.203 0.242
Expression systems:
  • Escherichia coli
  • Escherichia coli BL21(DE3)

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