› 2x1x

X-ray diffraction
3.1Å resolution

CRYSTAL STRUCTURE OF VEGF-C IN COMPLEX WITH DOMAINS 2 AND 3 OF VEGFR2 IN A TETRAGONAL CRYSTAL FORM

Released:
DOI: 10.2210/pdb2x1x/pdb
PDB entry 2x1x coloured by chain, front view.
PDB entry 2x1x coloured by chain, side view.
PDB entry 2x1x coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural determinants of growth factor binding and specificity by VEGF receptor 2.
Leppänen VM, Prota AE, Jeltsch M, Anisimov A, Kalkkinen N, Strandin T, Lankinen H, Goldman A, Ballmer-Hofer K, Alitalo K
Proc Natl Acad Sci U S A 107 2425-30 (2010)
PMID: 20145116

Function and Biology Details

Reaction catalysed: 
ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-153089 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (4 distinct):
Vascular endothelial growth factor C Chain: E
Molecule details ›
Chain: E
Length: 110 amino acids
Theoretical weight: 12.39 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P49767 (Residues: 112-215; Coverage: 27%)
Gene name: VEGFC
Sequence domains: PDGF/VEGF domain
Structure domains: Cystine-knot cytokines
Vascular endothelial growth factor receptor 2 Chain: R
Molecule details ›
Chain: R
Length: 213 amino acids
Theoretical weight: 23.91 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P35968 (Residues: 120-328; Coverage: 16%)
Gene names: FLK1, KDR, VEGFR2
Sequence domains:
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand HG 1 x HG
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P42212
Unit cell:
a: 88.733Å b: 88.733Å c: 105.273Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.273 0.266 0.334
Expression system: Spodoptera frugiperda

Quick links

Citations

30 review citations

Cell signaling by receptor tyrosine kinases.
Lemmon et al. (2010)
29 more

14 mentions without citation

Function of members of the neuropilin family as essential pleiotropic cell surface receptors.
Parker et al. (2012)
13 more