SMTL ID : 3mrv.1

Glycogen phosphorylase complexed with 3-hydroxybenzaldehyde-4-(beta-D-glucopyranosyl) thiosemicarbazone

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

homo-dimer

Ligands

4 x 16F: N-({(2Z)-2-[(3-hydroxyphenyl)methylidene]hydrazino}carbonothioyl)-beta-D-glucopyranosylamine(Non-covalent)

16F.1: 14 residues within 4Å: Chain A: R.60, V.64, W.67, N.187, P.188, W.189, E.190, K.191, A.192, Y.226, P.229 Chain B: F.37, T.38, V.40 15 PLIP interactions: 13 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:R.60, A:R.60, A:V.64, A:W.67, B:V.40 Hydrogen bonds: A:H.57, A:R.60, A:W.189, A:E.190, A:E.190, A:E.190, A:A.192, B:T.38 Water bridges: A:R.160, A:N.187 16F.2: 20 residues within 4Å: Chain A: G.135, L.136, L.139, N.282, D.283, N.284, F.285, F.286, H.341, H.377, T.378, A.383, V.455, N.484, Y.573, E.672, A.673, S.674, G.675, T.676 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:N.284, A:N.284, A:N.284, A:H.377, A:A.383, A:E.672, A:E.672, A:S.674, A:G.675, A:G.675 Water bridges: A:N.282, A:D.283, A:E.385, A:A.673, A:A.673, A:T.676 pi-Stacking: A:H.341 16F.4: 14 residues within 4Å: Chain A: F.37, T.38, V.40 Chain B: R.60, V.64, W.67, N.187, P.188, W.189, E.190, K.191, A.192, Y.226, P.229 14 PLIP interactions: 12 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:R.60, B:R.60, B:V.64, B:W.67, A:V.40 Hydrogen bonds: B:H.57, B:R.60, B:W.189, B:E.190, B:E.190, B:A.192, A:T.38 Water bridges: B:R.160, B:N.187 16F.5: 20 residues within 4Å: Chain B: G.135, L.136, L.139, N.282, D.283, N.284, F.285, F.286, H.341, H.377, T.378, A.383, V.455, N.484, Y.573, E.672, A.673, S.674, G.675, T.676 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:N.284, B:N.284, B:N.284, B:H.377, B:H.377, B:A.383, B:E.672, B:S.674, B:G.675, B:G.675 Water bridges: B:N.282, B:D.283, B:R.292, B:A.673, B:A.673, B:T.676 pi-Stacking: B:H.341

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 4 residues within 4Å: Chain A: F.196, R.242, R.309, R.310 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.242, A:R.242, A:R.309, A:R.309, A:R.310 DMS.6: 4 residues within 4Å: Chain B: F.196, R.242, R.309, R.310 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.242, B:R.242, B:R.309, B:R.309, B:R.310

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alexacou, K.M. et al., The binding of beta-D-glucopyranosyl-thiosemicarbazone derivatives to glycogen phosphorylase: a new class of inhibitors. Bioorg.Med.Chem. (2010)

Release Date

2011-01-05

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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