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Glycogen phosphorylase in complex with chlorogenic acid.

Analyse Glycogen phosphorylase in complex with chlorogenic acid. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5MCB
Type: protein
Length: 809 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Glycogen phosphorylase, muscle form
EC: 2.4.1.1
UniProt: P00489
Ligands: PLP, CGG
Pockets: 12 · best druggability 0.86

Structure

x-ray diffraction · 1 distinct chain · 53% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Glycogen phosphorylase, muscle form (EC 2.4.1.1)	protein	809	53% helix, 16% strand	P00489

Ligands and binding sites

PLP · Pyridoxal-5'-phosphate · ligand · chains A
CGG · Chlorogenic acid · ligand · 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, 7 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	375	0.86	0.94	51	PLP, CGG
2	97	0.75	0.96	25	empty
3	488	0.70	0.81	62	empty
4	50	0.69	0.98	18	empty
5	121	0.52	0.81	20	empty

Modifications

Observed in the structure: 1 cofactor (pyridoxal phosphate Schiff base).

Compared structures

5MCB · Glycogen phosphorylase in complex with chlorogenic acid. · 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 P00489
Elsewhere: RCSB PDB 5MCB · PDBe 5MCB · UniProt P00489

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