MolNFT v1 · #152367 · protein

A glycoside hydrolase family 43 beta-xylosidase

6IFE: “A glycoside hydrolase family 43 beta-xylosidase”. X-ray diffraction, 14 pockets (best druggability 0.78). MolNFT v1 #152367 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6IFE
Type: protein
Length: 1,069 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Beta-xylosidase
EC: 3.2.1.37
UniProt: A0A4V8GZZ0
Pockets: 14 · best druggability 0.78

Structure

x-ray diffraction · 2 distinct chains · 1% helix, 47% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Beta-xylosidase (EC 3.2.1.37)	protein	535	1% helix, 47% strand	A0A4V8GZZ0
B	Beta-xylosidase (EC 3.2.1.37)	protein	534	1% helix, 46% strand	A0A4V8GZZ0

Ligands and binding sites

GOL · Glycerol · additive · 5 copies · chains A, B

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

Pockets

14 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	490	0.78	0.85	39	empty
2	286	0.64	0.81	24	empty
3	298	0.63	0.80	25	empty
4	186	0.58	0.81	30	GOL
5	118	0.57	0.84	30	empty

Interfaces

1 interface between chains.

A–B · 2049 Å² buried · 28 hydrogen bonds · protein-protein

Compared structures

6IFE · A Glycoside Hydrolase Family 43 beta-Xylosidase · 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 A0A4V8GZZ0
Elsewhere: RCSB PDB 6IFE · PDBe 6IFE · UniProt A0A4V8GZZ0

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