› 4qds

X-ray diffraction
2.4Å resolution

Physical basis for Nrp2 ligand binding

Released:
DOI: 10.2210/pdb4qds/pdb
PDB entry 4qds coloured by chain, front view.
PDB entry 4qds coloured by chain, side view.
PDB entry 4qds coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for VEGF-C binding to neuropilin-2 and sequestration by a soluble splice form.
Parker MW, Linkugel AD, Goel HL, Wu T, Mercurio AM, Vander Kooi CW
Structure 23 677-87 (2015)
PMID: 25752543

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129982 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Neuropilin-2 Chains: A, B
Molecule details ›
Chains: A, B
Length: 187 amino acids
Theoretical weight: 20.93 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O60462 (Residues: 275-457; Coverage: 20%)
Gene names: NRP2, VEGF165R2
Sequence domains: F5/8 type C domain
Structure domains: Galactose-binding domain-like

Ligands and Environments

2 bound ligands:
Ligand GOL 1 x GOL
Ligand ACT 1 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P21212
Unit cell:
a: 69.359Å b: 91.386Å c: 67.326Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.213 0.21 0.264
Expression system: Escherichia coli

Quick links

Citations

17 review citations

Multifaceted Role of Neuropilins in the Immune System: Potential Targets for Immunotherapy.
Roy et al. (2017)
16 more

3 mentions without citation

Activation of GTP hydrolysis in mRNA-tRNA translocation by elongation factor G.
Li et al. (2015)
2 more