MolNFT v1 · #54384 · protein

Structure of alpha-galactosidase from lactobacillus acidophilus ncfm with galactose

2XN2: “Structure of alpha-galactosidase from lactobacillus acidophilus ncfm with galactose”. X-ray diffraction, 1 ligand (GLA), 7 pockets (best druggability 0.59). MolNFT v1 #54384 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 2XN2
Type: protein
Length: 729 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Alpha-galactosidase
EC: 3.2.1.22
UniProt: Q7WWP9
Ligands: GLA
Pockets: 7 · best druggability 0.59

Structure

x-ray diffraction · 1 distinct chain · 22% helix, 32% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Alpha-galactosidase (EC 3.2.1.22)	protein	729	22% helix, 32% strand	Q7WWP9

Ligands and binding sites

GLA · alpha-D-galactopyranose · sugar · chains A
GOL · Glycerol · additive · 25 copies · chains A
IMD · Imidazole · additive · chains A

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

Pockets

7 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	127	0.59	0.85	24	GOL
2	112	0.48	0.80	30	GLA, IMD
3	129	0.45	0.77	20	empty
4	122	0.42	0.77	24	empty
5	111	0.41	0.76	18	GOL

Modifications

Observed in the structure: 2 modified (nonstandard).

Compared structures

2XN2 · Structure of alpha-galactosidase from Lactobacillus acidophilus NCFM with galactose · 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 Q7WWP9
Elsewhere: RCSB PDB 2XN2 · PDBe 2XN2 · UniProt Q7WWP9

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