MolNFT v1 · #32597 · protein

Crystal structure of gltp with bound GM3

2BV7 · Glycolipid transfer protein: “Crystal structure of gltp with bound GM3”. X-ray diffraction, 2 ligands (GM3, SO4), 1 pocket (best druggability 0.78). MolNFT v1 #32597 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2BV7
Type: protein
Length: 202 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Glycolipid transfer protein
UniProt: P68265
Ligands: GM3, SO4
Pockets: 1 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 68% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Glycolipid transfer protein	protein	202	68% helix, 1% strand	P68265

Ligands and binding sites

GM3 · N-{1-[(hexopyranosyloxy)methyl]-2-hydroxynonadecyl}tetracosanamide · ligand · chains A
SO4 · Sulfate ion · ion · 2 copies · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	405	0.78	0.86	46	GM3

Compared structures

2BV7 · Crystal structure of GLTP with bound GM3 · the same entry in another collection · chain A against A, TM-score 1.00
P68265 · AlphaFold monomer V2.0 prediction for glycolipid transfer protein (P68265) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 P68265
Elsewhere: RCSB PDB 2BV7 · PDBe 2BV7 · UniProt P68265

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