SMTL ID : 5o56.1

Glycogen Phosphorylase b in complex with 29b

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.45 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 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.649, A:K.681 Hydrogen bonds: A:T.677, A:T.677, A:G.678 Water bridges: A:K.569, A:K.575, A:N.679, 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 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:Y.649, B:K.681 Hydrogen bonds: B:T.677, B:T.677, B:G.678 Water bridges: B:K.569, B:K.575, B:Y.649, B:N.679, B:N.679 Salt bridges: B:K.569, B:K.575

2 x 9L8: (2~{R},3~{S},4~{R},5~{R},6~{R})-5-azanyl-2-(hydroxymethyl)-6-(3-naphthalen-2-yl-1~{H}-1,2,4-triazol-5-yl)oxane-3,4-diol(Non-covalent)

9L8.2: 20 residues within 4Å: Chain A: E.89, G.136, L.137, L.140, N.283, N.285, F.286, R.293, H.342, H.378, T.379, A.384, V.456, N.485, Y.574, E.673, A.674, S.675, G.676, T.677 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:N.285, A:N.485, A:N.485, A:E.673, A:E.673, A:S.675, A:S.675, A:G.676 Water bridges: A:L.137, A:T.379, A:T.677 pi-Cation interactions: A:H.342, A:H.342 9L8.4: 20 residues within 4Å: Chain B: E.89, G.136, L.137, L.140, N.283, N.285, F.286, R.293, H.342, H.378, T.379, A.384, V.456, N.485, Y.574, E.673, A.674, S.675, G.676, T.677 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:N.285, B:H.378, B:N.485, B:N.485, B:Y.574, B:E.673, B:S.675, B:S.675, B:G.676 Water bridges: B:L.137, B:A.674, B:T.677 pi-Cation interactions: B:H.342, B:H.342

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bokor, E. et al., Nanomolar Inhibitors of Glycogen Phosphorylase Based on beta-d-Glucosaminyl Heterocycles: A Combined Synthetic, Enzyme Kinetic, and Protein Crystallography Study. J. Med. Chem. (2017)

Release Date

2017-09-27

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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