MolNFT v1 · #65119 · protein

Crystal structure of a rice OS3BGLU6 beta-glucosidase

3GNO · OS03G0212800 protein: “Crystal structure of a rice OS3BGLU6 beta-glucosidase”. X-ray diffraction, 3 pockets (best druggability 0.75). MolNFT v1 #65119 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3GNO
Type: protein
Length: 478 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: OS03G0212800 protein
EC: 3.2.1.21
UniProt: Q8L7J2
Pockets: 3 · best druggability 0.75

Structure

x-ray diffraction · 1 distinct chain · 44% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	OS03G0212800 protein (EC 3.2.1.21)	protein	478	44% helix, 17% strand	Q8L7J2

Ligands and binding sites

GOL · Glycerol · additive · 6 copies · chains A
TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	626	0.75	0.81	52	TRS
2	104	0.39	0.75	17	empty
3	81	0.36	0.76	25	GOL

Modifications

Observed in the structure: 1 disulfide (disulfide).

Compared structures

3GNO · Crystal Structure of a Rice Os3BGlu6 Beta-Glucosidase · the same entry in another collection · chain A against A, TM-score 1.00
Q8L7J2 · AlphaFold monomer V2.0 prediction for beta-glucosidase 6 (Q8L7J2) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 Q8L7J2
Elsewhere: RCSB PDB 3GNO · PDBe 3GNO · UniProt Q8L7J2

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