MolNFT v1 · #26476 · protein

Crystal structure of vr-1, a VEGF-F from a snake venom

1WQ9 · Vascular endothelial growth factor: “Crystal structure of vr-1, a VEGF-F from a snake venom”. X-ray diffraction, 1 pocket (best druggability 0.35). MolNFT v1 #26476 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1WQ9
Type: protein
Length: 192 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Vascular endothelial growth factor
UniProt: P67861
Pockets: 1 · best druggability 0.35

Structure

x-ray diffraction · 2 distinct chains · 13% helix, 58% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Vascular endothelial growth factor	protein	96	13% helix, 58% strand	P67861
B	Vascular endothelial growth factor	protein	96	13% helix, 57% strand	P67861

Pockets

1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	101	0.35	0.74	23	empty

Interfaces

1 interface between chains.

A–B · 1372 Å² buried · 19 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 8 disulfide, 1 modified (disulfide, cyclization).

Compared structures

1WQ9 · Crystal structure of VR-1, a VEGF-F from a snake venom · the same entry in another collection · chain A against A, TM-score 1.00
P67861 · AlphaFold monomer V2.0 prediction for snake venom vascular endothelial growth factor… · 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 P67861
Elsewhere: RCSB PDB 1WQ9 · PDBe 1WQ9 · UniProt P67861

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