MolNFT v1 · #161959 · protein

Truncated beta-galactosidase III from bifidobacterium bifidum

6QUC: “Truncated beta-galactosidase III from bifidobacterium bifidum”. X-ray diffraction, 1 ligand (CA), 20 pockets (best druggability 0.75). MolNFT v1 #161959 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6QUC
Type: protein
Length: 1,718 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Beta-galactosidase
EC: 3.2.1.23
UniProt: Q9F4D5
Ligands: CA
Pockets: 20 · best druggability 0.75

Structure

x-ray diffraction · 1 distinct chain · 14% helix, 38% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Beta-galactosidase (EC 3.2.1.23)	protein	859	14% helix, 38% strand	Q9F4D5

Ligands and binding sites

CA · Calcium ion · metal · 4 copies · chains A, B
IMD · Imidazole · additive · 6 copies · chains A, B

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

Pockets

20 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1194	0.75	0.78	109	empty
2	1194	0.75	0.78	100	empty
3	63	0.74	0.99	21	IMD
4	53	0.73	0.99	20	IMD
5	469	0.69	0.80	44	empty

Interfaces

1 interface between chains.

A–B · 333 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

6QUC · Truncated beta-galactosidase III from Bifidobacterium bifidum · 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 Q9F4D5
Elsewhere: RCSB PDB 6QUC · PDBe 6QUC · UniProt Q9F4D5

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