› 2qqm

X-ray diffraction
2Å resolution

Crystal Structure of the a2b1b2 Domains from Human Neuropilin-1

Released:
DOI: 10.2210/pdb2qqm/pdb
PDB entry 2qqm coloured by chain, front view.
PDB entry 2qqm coloured by chain, side view.
PDB entry 2qqm coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural studies of neuropilin/antibody complexes provide insights into semaphorin and VEGF binding.
Appleton BA, Wu P, Maloney J, Yin J, Liang WC, Stawicki S, Mortara K, Bowman KK, Elliott JM, Desmarais W, Bazan JF, Bagri A, Tessier-Lavigne M, Koch AW, Wu Y, Watts RJ, Wiesmann C
EMBO J 26 4902-12 (2007)
PMID: 17989695

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-127136 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (3 distinct):
Neuropilin-1 Chain: A
Molecule details ›
Chain: A
Length: 450 amino acids
Theoretical weight: 50.74 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: O14786 (Residues: 141-586; Coverage: 49%)
Gene names: NRP, NRP1, VEGF165R
Sequence domains:
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, FUC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand CA 1 x CA
Ligand EDO 6 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P21
Unit cell:
a: 53.177Å b: 68.178Å c: 66.613Å
α: 90° β: 102.1° γ: 90°
R-values:
R R work R free
0.186 0.183 0.243
Expression system: Trichoplusia ni

Quick links

Citations

55 review citations

Role and therapeutic potential of VEGF in the nervous system.
Ruiz de Almodovar et al. (2009)
54 more

15 mentions without citation

Potential entry receptors for human γ-herpesvirus into epithelial cells: A plausible therapeutic target for viral infections.
Rani et al. (2021)
14 more