MolNFT v1 · #129041 · protein

Crystal structure of leuconostoc citreum nrrl B-1299 N-terminally truncated dextransucrase dsr-M in complex with sucrose

5O8L · Alternansucrase: “Crystal structure of leuconostoc citreum nrrl B-1299 N-terminally truncated dextransucrase dsr-M in complex…”. X-ray diffraction, 3 ligands (GLC, FRU, CA), 12 pockets (best druggability 0.71). MolNFT v1 #129041 on…

PDB: 5O8L
Type: protein
Length: 1,098 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Alternansucrase
EC: 2.4.1.140
Ligands: GLC, FRU, CA
Pockets: 12 · best druggability 0.71

Structure

x-ray diffraction · 1 distinct chain · 25% helix, 21% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Alternansucrase (EC 2.4.1.140)	protein	1098	25% helix, 21% strand	—

Ligands and binding sites

GLC · alpha-D-glucopyranose · sugar · chains A
FRU · beta-D-fructofuranose · sugar · chains A
CA · Calcium ion · metal · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	719	0.71	0.78	65	empty
2	130	0.70	0.91	24	empty
3	391	0.67	0.80	39	GLC, FRU
4	51	0.54	0.89	18	empty
5	84	0.44	0.80	19	empty

Compared structures

5O8L · Crystal structure of Leuconostoc citreum NRRL B-1299 N-terminally truncated… · 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 5O8L · PDBe 5O8L

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