Research workbench

Structure of beta-1,4-galactanase

Analyse Structure of beta-1,4-galactanase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2CCR
Type: protein
Length: 773 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Yvfo
EC: 3.2.1.89
UniProt: Q65CX5
Ligands: GAL, CA
Pockets: 4 · best druggability 0.67

Structure

x-ray diffraction · 2 distinct chains · 38% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Yvfo (EC 3.2.1.89)	protein	386	38% helix, 15% strand	Q65CX5
B	Yvfo (EC 3.2.1.89)	protein	387	38% helix, 15% strand	Q65CX5

Ligands and binding sites

GAL · beta-D-galactopyranose · sugar · 10 copies · chains A, B
CA · Calcium ion · metal · 2 copies · chains A, B
PGE · Triethylene glycol · additive · 2 copies · chains B

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	381	0.67	0.80	36	GAL
2	351	0.66	0.80	36	GAL
3	504	0.62	0.75	51	empty
4	53	0.25	0.72	19	empty

Interfaces

1 interface between chains.

A–B · 242 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

2CCR · Structure of Beta-1,4-Galactanase · the same entry in another collection · chain A against A, TM-score 1.00
Q65CX5 · AlphaFold monomer V2.0 prediction for endo-beta-1,4-galactanase (Q65CX5) · a predicted model of the same protein · chain B 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 Q65CX5
Elsewhere: RCSB PDB 2CCR · PDBe 2CCR · UniProt Q65CX5

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.