SMTL ID : 3zcr.1

Rabbit muscle glycogen phosphorylase b in complex with N-(4-tert- butyl-benzoyl)-N-beta-D-glucopyranosyl urea determined at 2.07 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

homo-dimer

Ligands

2 x IMP: INOSINIC ACID(Non-covalent)

IMP.1: 7 residues within 4Å: Chain A: Q.72, Q.73, Y.76, R.310, R.311 Chain B: D.43, V.46 6 PLIP interactions: 1 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:D.43 Water bridges: A:R.82 Salt bridges: A:R.310, A:R.311 pi-Stacking: A:Y.76, A:Y.76 IMP.4: 7 residues within 4Å: Chain A: D.43, V.46 Chain B: Q.72, Q.73, Y.76, R.310, R.311 6 PLIP interactions: 1 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:D.43 Water bridges: B:R.82 Salt bridges: B:R.310, B:R.311 pi-Stacking: B:Y.76, B:Y.76

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

PLP.2: 14 residues within 4Å: Chain A: Y.91, G.135, G.136, W.492, V.568, K.569, K.575, Y.649, R.650, V.651, G.676, T.677, G.678, K.681 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.91, A:Y.649, A:V.651, A:K.681 Hydrogen bonds: A:T.677, A:G.678, A:K.681 Water bridges: A:Y.91, A:G.136, A:K.569, A:K.569, A:K.575, A:N.679 Salt bridges: A:K.569, A:K.575 PLP.5: 14 residues within 4Å: Chain B: Y.91, G.135, G.136, W.492, V.568, K.569, K.575, Y.649, R.650, V.651, G.676, T.677, G.678, K.681 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:Y.91, B:Y.649, B:V.651, B:K.681 Hydrogen bonds: B:Y.649, B:T.677, B:G.678, B:K.681 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 F85: N-[(4-tert-butylbenzoyl)carbamoyl]-beta-D-glucopyranosylamine(Non-covalent)

F85.3: 20 residues within 4Å: Chain A: E.89, N.134, G.136, L.137, L.140, N.283, D.284, F.286, F.287, H.342, H.378, 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 A Hydrophobic interactions: A:D.284 Hydrogen bonds: A:G.136, A:L.137, A:Y.574, A:E.673, A:E.673, A:A.674, A:S.675, A:G.676, A:G.676 Water bridges: A:G.138, A:H.378, A:Y.574, A:T.677 F85.6: 20 residues within 4Å: Chain B: E.89, N.134, G.136, L.137, L.140, N.283, D.284, F.286, F.287, H.342, H.378, A.384, V.456, N.485, Y.574, E.673, A.674, S.675, G.676, T.677 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:D.284 Hydrogen bonds: B:G.136, B:L.137, B:H.378, B:E.673, B:A.674, B:S.675, B:G.676, B:G.676 Water bridges: B:G.138, B:D.284, B:H.378, B:Y.574, B:Y.574, B:Y.574, B:Y.574, B:T.677

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chrysina, E.D. et al., Synthesis, Kinetic, Computational and Crystallographic Evaluation of N-Acyl-N-Beta-D- Glucopyranosyl)Ureas, Nanomolar Glucose Analogue Inhibitors of Glycogen Phosphorylase, Potential Antidiabetic Agents. To be Published

Release Date

2013-12-11

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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