Research workbench
Vegfr-2/VEGF-a complex structure
Analyse Vegfr-2/VEGF-a complex structure in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3V2A
- Type
- protein
- Length
- 280 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.204
- Source
- Homo sapiens
- Molecule
- Vascular endothelial growth factor receptor 2; Vascular endothelial growth factor A
- EC
- 2.7.10.1
- UniProt
- P35968, P15692
- Pockets
- 3 · best druggability 0.34
Structure
x-ray diffraction · resolution 3.204 · 2 distinct chains · 5% helix, 58% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| R | Vascular endothelial growth factor receptor 2 (EC 2.7.10.1) | protein | 185 | 2% helix, 56% strand | P35968 |
| A | Vascular endothelial growth factor A | protein | 95 | 11% helix, 62% strand | P15692 |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 75 | 0.34 | 0.75 | 19 | empty |
| 2 | 58 | 0.30 | 0.75 | 16 | empty |
| 3 | 54 | 0.27 | 0.73 | 13 | empty |
Interfaces
1 interface between chains.
- R–A · 698 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 3V2A · Vegfr-2/VEGF-a complex structure · the same entry in another collection · chain A against A, TM-score 1.00
- P15692 · AlphaFold monomer V2.0 prediction for vascular endothelial growth factor a (P15692) · a predicted model of the same protein · chain A against A, TM-score 0.97
- P35968 · AlphaFold monomer V2.0 prediction for vascular endothelial growth factor receptor 2… · a predicted model of the same protein · chain R against A, TM-score 0.94
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P35968
- Every structure of UniProt P15692
- Elsewhere: RCSB PDB 3V2A · PDBe 3V2A · UniProt P35968 · UniProt P15692
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