SMTL ID : 1h5u.1

THE 1.76 A RESOLUTION CRYSTAL STRUCTURE OF GLYCOGEN PHOSPHORYLASE B COMPLEXED WITH GLUCOSE AND CP320626, A POTENTIAL ANTIDIABETIC DRUG

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.76 Å

Oligo State

homo-dimer

Ligands

2 x CHI: 5-CHLORO-1H-INDOLE-2-CARBOXYLIC ACID [1-(4-FLUOROBENZYL)-2-(4-HYDROXYPIPERIDIN-1YL)-2-OXOETHYL]AMIDE(Non-covalent)

CHI.1: 19 residues within 4Å: Chain A: R.60, L.63, V.64, W.67, P.188, W.189, E.190, K.191, A.192, P.229 Chain B: T.38, L.39, V.40, F.53, H.57, Y.185, G.186, N.187, P.188 14 PLIP interactions: 6 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:T.38, B:V.40, B:F.53, A:V.64, A:W.67, A:K.191, A:P.229 Hydrogen bonds: B:T.38, A:E.190 Water bridges: B:R.184, A:R.60, A:R.60 pi-Stacking: B:H.57 pi-Cation interactions: A:R.60 CHI.4: 19 residues within 4Å: Chain A: T.38, L.39, V.40, F.53, H.57, Y.185, G.186, N.187, P.188 Chain B: R.60, L.63, V.64, W.67, P.188, W.189, E.190, K.191, A.192, P.229 14 PLIP interactions: 8 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:V.64, B:W.67, B:K.191, B:P.229, A:T.38, A:V.40, A:F.53 Hydrogen bonds: B:E.190, A:T.38 Water bridges: B:R.60, B:R.60, A:R.184 pi-Cation interactions: B:R.60 pi-Stacking: A:H.57

2 x GLC: alpha-D-glucopyranose(Non-covalent)

GLC.2: 13 residues within 4Å: Chain A: G.135, L.136, L.139, N.284, H.377, V.455, N.484, Y.573, E.672, A.673, S.674, G.675, T.676 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:G.135, A:L.136, A:N.284, A:N.284, A:N.484, A:E.672, A:E.672, A:S.674, A:G.675, A:G.675 Water bridges: A:D.283, A:D.283, A:K.574, A:E.672, A:A.673, A:T.676 GLC.5: 13 residues within 4Å: Chain B: G.135, L.136, L.139, N.284, H.377, V.455, N.484, Y.573, E.672, A.673, S.674, G.675, T.676 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:G.135, B:L.136, B:N.284, B:N.284, B:H.377, B:N.484, B:E.672, B:S.674, B:G.675, B:G.675 Water bridges: B:D.283, B:Y.573, B:K.574, B:E.672, B:A.673, B:T.676

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

PLP.3: 14 residues within 4Å: Chain A: Y.90, G.134, G.135, W.491, K.568, K.574, Y.648, R.649, V.650, A.653, G.675, T.676, G.677, K.680 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.90, A:Y.648, A:K.680 Hydrogen bonds: A:T.676, A:T.676, A:G.677 Water bridges: A:Y.90, A:K.568, A:K.574, A:K.574, A:K.574, A:N.678, A:N.678 Salt bridges: A:K.568, A:K.574 PLP.6: 14 residues within 4Å: Chain B: Y.90, G.134, G.135, W.491, K.568, K.574, Y.648, R.649, V.650, A.653, G.675, T.676, G.677, K.680 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:Y.90, B:Y.648, B:K.680 Hydrogen bonds: B:Y.648, B:T.676, B:T.676, B:G.677 Water bridges: B:K.568, B:K.574, B:K.574, B:K.574, B:N.678, B:N.678 Salt bridges: B:K.568, B:K.574

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oikonomakos, N.G. et al., The 1.76 A Resolution Crystal Structure of Glycogen Phosphorylase B Complexed with Glucose, and Cp320626, a Potential Antidiabetic Drug. Bioorg.Med.Chem. (2002)

Release Date

2001-06-28

Peptides

GLYCOGEN PHOSPHORYLASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

GLYCOGEN PHOSPHORYLASE

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