MolNFT v1 · #176028 · protein

Alpha-glucosidase from weissella cibaria bbk-1 bound with maltose

7D9C · Alpha-glycosidase: “Alpha-glucosidase from weissella cibaria bbk-1 bound with maltose”. X-ray diffraction, 4 ligands (GLC, BGC, CA), 4 pockets (best druggability 0.64). MolNFT v1 #176028 on GenesisL1: 3D structure, binding sites and…

PDB: 7D9C
Type: protein
Length: 588 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Alpha-glycosidase
EC: 3.2.1.20
Ligands: GLC, BGC, CA, SO4
Pockets: 4 · best druggability 0.64

Structure

x-ray diffraction · 1 distinct chain · 31% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Alpha-glycosidase (EC 3.2.1.20)	protein	588	31% helix, 25% strand	—

Ligands and binding sites

GLC · alpha-D-glucopyranose · sugar · 3 copies · chains A
BGC · beta-D-glucopyranose · sugar · chains A
CA · Calcium ion · metal · chains A
SO4 · Sulfate ion · ion · 6 copies · chains A
MES · 2-(N-morpholino)-ethanesulfonic acid · additive · 2 copies · chains A

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

Pockets

4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	337	0.64	0.80	38	empty
2	305	0.62	0.79	39	GLC, BGC
3	88	0.47	0.81	19	empty
4	58	0.28	0.74	15	empty

Compared structures

7D9C · Alpha-glucosidase from Weissella cibaria BBK-1 bound with maltose · 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
Elsewhere: RCSB PDB 7D9C · PDBe 7D9C

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