SMTL ID : 8bzs.1

The crystal structure of glycogen phosphorylase in complex with baicalein

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-dimer

Ligands

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.1: 14 residues within 4Å: Chain A: G.135, G.136, W.492, V.568, K.569, K.575, Y.649, R.650, V.651, A.654, G.676, T.677, G.678, K.681 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.649, A:V.651, A:K.681 Hydrogen bonds: A:T.677, A:T.677, A:G.678 Water bridges: A:G.136, A:K.569, A:K.569, A:K.575, A:N.679 Salt bridges: A:K.569, A:K.575 PLP.3: 14 residues within 4Å: Chain B: G.135, G.136, W.492, V.568, K.569, K.575, Y.649, R.650, V.651, A.654, G.676, T.677, G.678, K.681 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:Y.649, B:V.651, B:K.681 Hydrogen bonds: B:Y.649, B:T.677, B:T.677, B:G.678 Water bridges: B:G.136, B:K.569, B:K.569, B:K.575, B:N.679 Salt bridges: B:K.569, B:K.575

2 x 3WL: 5,6,7-trihydroxy-2-phenyl-4H-chromen-4-one(Non-covalent)

3WL.2: 11 residues within 4Å: Chain A: N.283, N.285, F.286, E.383, H.572, E.573, A.611, G.613, Y.614, R.771, F.772 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.286, A:E.383, A:Y.614, A:F.772 Hydrogen bonds: A:N.283 Water bridges: A:G.613 pi-Stacking: A:F.286, A:F.286, A:Y.614 3WL.4: 11 residues within 4Å: Chain B: N.283, N.285, F.286, E.383, H.572, E.573, A.611, G.613, Y.614, R.771, F.772 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.286, B:E.383, B:Y.614, B:F.772 Hydrogen bonds: B:N.283 Water bridges: B:G.613 pi-Stacking: B:F.286, B:F.286, B:Y.614

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mathomes, R.T. et al., Multidisciplinary docking, kinetics and X-ray crystallography studies of baicalein acting as a glycogen phosphorylase inhibitor and determination of its' potential against glioblastoma in cellular models. Chem.Biol.Interact. (2023)

Release Date

2023-09-13

Peptides

Glycogen phosphorylase, muscle form: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Glycogen phosphorylase, muscle form

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