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Structure of the exo-alpha-L-galactosidase BPGH29 from bacteroides plebeius in complex with L-galactose

Analyse Structure of the exo-alpha-L-galactosidase BPGH29 from bacteroides plebeius in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7LK7
Type: protein
Length: 562 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Exo-alpha-L-galactosidase
UniProt: B5CYA5
Ligands: GXL, CA
Pockets: 3 · best druggability 0.56

Structure

x-ray diffraction · 1 distinct chain · 28% helix, 27% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Exo-alpha-L-galactosidase	protein	562	28% helix, 27% strand	B5CYA5

Ligands and binding sites

GXL · alpha-L-galactopyranose · ligand · chains A
CA · Calcium ion · metal · chains A
EDO · 1,2-ethanediol · 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	209	0.56	0.79	38	empty
2	111	0.45	0.78	29	GXL, EDO
3	97	0.37	0.75	24	empty

Compared structures

7LK7 · Structure of the Exo-alpha-L-galactosidase BpGH29 from Bacteroides plebeius in complex… · 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 B5CYA5
Elsewhere: RCSB PDB 7LK7 · PDBe 7LK7 · UniProt B5CYA5

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