MolNFT v1 · #82311 · protein

Crystal structure of beta-glucosidase from termite neotermes koshunensis in complex with a new glucopyranosidic product

3VIM: “Crystal structure of beta-glucosidase from termite neotermes koshunensis in complex with a new…”. X-ray diffraction, 3 ligands (GBH, NA, CL), 1 pocket (best druggability 0.69). MolNFT v1 #82311 on GenesisL1: 3D structure, binding…

PDB: 3VIM
Type: protein
Length: 472 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Beta-glucosidase
EC: 3.2.1.21
UniProt: Q8T0W7
Ligands: GBH, NA, CL
Pockets: 1 · best druggability 0.69

Structure

x-ray diffraction · 1 distinct chain · 45% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Beta-glucosidase (EC 3.2.1.21)	protein	472	45% helix, 16% strand	Q8T0W7

Ligands and binding sites

GBH · 2-{4-[2-(beta-D-glucopyranosyloxy)ethyl]piperazin-1-yl}ethanesulfonic acid · ligand · chains A
NA · Sodium ion · metal · chains A
CL · Chloride ion · ion · chains A
GOL · Glycerol · additive · 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	521	0.69	0.78	45	GBH

Compared structures

3VIM · Crystal structure of beta-glucosidase from termite Neotermes koshunensis in complex with… · the same entry in another collection · chain A against A, TM-score 1.00

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 Q8T0W7
Elsewhere: RCSB PDB 3VIM · PDBe 3VIM · UniProt Q8T0W7

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