MolNFT v1 · #33030 · protein
Crystal structure of human vascular endothelial growth factor-B: identification of amino acids important for angiogeninc activity
2C7W · Vascular endothelial growth factor B precursor: “Crystal structure of human vascular endothelial growth factor-B: identification of amino acids important for…”. X-ray diffraction, 2 pockets (best druggability 0.31). MolNFT v1 #33030…
- PDB
- 2C7W
- Type
- protein
- Length
- 190 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Vascular endothelial growth factor B precursor
- UniProt
- P49765
- Pockets
- 2 · best druggability 0.31
Structure
x-ray diffraction · 1 distinct chain · 8% helix, 62% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Vascular endothelial growth factor B precursor | protein | 95 | 8% helix, 62% strand | P49765 |
Ligands and binding sites
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 70 | 0.31 | 0.74 | 18 | empty |
| 2 | 65 | 0.29 | 0.73 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 1266 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 2C7W · Crystal Structure of human vascular endothelial growth factor-B: Identification of amino… · the same entry in another collection · chain A against A, TM-score 1.00
- P49765 · AlphaFold monomer V2.0 prediction for vascular endothelial growth factor B (P49765) · a predicted model of the same protein · chain A against A, TM-score 0.92
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 P49765
- Elsewhere: RCSB PDB 2C7W · PDBe 2C7W · UniProt P49765
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