2VWE image
Deposition Date 2008-06-23
Release Date 2008-11-04
Last Version Date 2024-11-20
Entry Detail
PDB ID:
2VWE
Keywords:
Title:
Crystal Structure of Vascular Endothelial Growth Factor-B in Complex with a Neutralizing Antibody Fab Fragment
Biological Source:
Source Organism:
HOMO SAPIENS (Taxon ID: 9606)
MUS MUSCULUS (Taxon ID: 10090)
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.40 Å
R-Value Free:
0.31
R-Value Work:
0.26
R-Value Observed:
0.28
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:VASCULAR ENDOTHELIAL GROWTH FACTOR B
Gene (Uniprot):VEGFB
Chain IDs:A, B
Chain Length:167
Number of Molecules:2
Biological Source:HOMO SAPIENS
Polymer Type:polypeptide(L)
Molecule:ANTI-VEGF-B MONOCLONAL ANTIBODY
Chain IDs:C, E (auth: J)
Chain Length:214
Number of Molecules:2
Biological Source:MUS MUSCULUS
Polymer Type:polypeptide(L)
Molecule:ANTI-VEGF-B MONOCLONAL ANTIBODY
Chain IDs:D (auth: E), F (auth: L)
Chain Length:219
Number of Molecules:2
Biological Source:MUS MUSCULUS
Ligand Molecules
Primary Citation
Crystal Structure of Vascular Endothelial Growth Factor-B in Complex with a Neutralising Antibody Fab Fragment.
J.Mol.Biol. 384 1203 ? (2008)
PMID: 18930733 DOI: 10.1016/J.JMB.2008.09.076

Abstact

Vascular endothelial growth factor (VEGF) B effects blood vessel formation by binding to VEGF receptor 1. To study the specifics of the biological profile of VEGF-B in both physiological and pathological angiogenesis, a neutralising anti-VEGF-B antibody (2H10) that functions by inhibiting the binding of VEGF-B to VEGF receptor 1 was developed. Here, we present the structural features of the 'highly ordered' interaction of the Fab fragment of this antibody (Fab-2H10) with VEGF-B. Two molecules of Fab-2H10 bind to symmetrical binding sites located at each pole of the VEGF-B homodimer, giving a unique U-shaped topology to the complex that has not been previously observed in the VEGF family. VEGF-B residues essential for binding to the antibody are contributed by both monomers of the cytokine. Our detailed analysis reveals that the neutralising effect of the antibody occurs by virtue of the steric hindrance of the receptor-binding interface. These findings suggest that functional complementarity between VEGF-B and 2H10 can be harnessed both in analysing the therapeutic potential of VEGF-B and as an antagonist of receptor activation.

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Primary Citation of related structures