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Spaga galactose product complex structure

Analyse Spaga galactose product complex structure in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6PHV
Type: protein
Length: 721 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Alpha-galactosidase
EC: 3.2.1.22
UniProt: A0A0H2URQ6
Ligands: GLA, NA
Pockets: 7 · best druggability 0.46

Structure

x-ray diffraction · 1 distinct chain · 22% helix, 33% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Alpha-galactosidase (EC 3.2.1.22)	protein	721	22% helix, 33% strand	A0A0H2URQ6

Ligands and binding sites

GLA · alpha-D-galactopyranose · sugar · chains A
NA · Sodium ion · metal · chains A
EDO · 1,2-ethanediol · additive · 7 copies · chains A
TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · 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, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	108	0.46	0.80	28	GLA
2	110	0.42	0.77	22	EDO
3	103	0.38	0.75	20	empty
4	57	0.37	0.80	17	EDO
5	63	0.31	0.75	14	empty

Compared structures

6PHV · SpAga galactose product complex structure · 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 A0A0H2URQ6
Elsewhere: RCSB PDB 6PHV · PDBe 6PHV · UniProt A0A0H2URQ6

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