SMTL ID : 3cuv.1

Tracking structure activity relationships of glycogen phosphorylase inhibitors: synthesis, kinetic and crystallographic evaluation of analogues of N-(-D-glucopyranosyl)-N'-oxamides

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

monomer

Ligands

1 x 475: N-[oxo(pyridin-2-ylamino)acetyl]-beta-D-glucopyranosylamine(Non-covalent)

475.1: 20 residues within 4Å: Chain A: G.135, L.136, L.139, N.282, D.283, N.284, F.285, D.339, H.341, H.377, T.378, A.383, V.455, N.484, Y.573, E.672, A.673, S.674, G.675, T.676 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:L.136, A:N.284, A:N.284, A:H.377, A:N.484, A:E.672, A:E.672, A:E.672, A:A.673, A:S.674, A:G.675, A:G.675 Water bridges: A:G.135, A:T.676 pi-Cation interactions: A:H.341

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

DMS.2: 4 residues within 4Å: Chain A: W.67, I.68, Q.71, R.193 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.193 Water bridges: A:D.227 pi-Cation interactions: A:W.67, A:W.67 DMS.3: 6 residues within 4Å: Chain A: Q.219, V.221, A.272, I.275, K.294 Ligands: DMS.16 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.294 DMS.4: 4 residues within 4Å: Chain A: H.201, W.215, R.351, L.356 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.351 Water bridges: A:W.215 pi-Cation interactions: A:H.201 DMS.5: 6 residues within 4Å: Chain A: R.519, E.701, E.702, A.703, G.704, T.807 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.519, A:R.519 DMS.6: 5 residues within 4Å: Chain A: E.706, F.708, F.709, R.786, M.800 1 PLIP interactions: 1 interactions with chain A Water bridges: A:I.710 DMS.7: 7 residues within 4Å: Chain A: R.66, N.101, L.102, A.103, R.234, N.236, R.833 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.66, A:R.234 DMS.8: 4 residues within 4Å: Chain A: Y.548, E.552, Y.553, R.649 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.553, A:R.649, A:R.649 Salt bridges: A:E.552 DMS.9: 5 residues within 4Å: Chain A: Q.264, L.267, D.268, N.270, L.271 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.270 DMS.10: 5 residues within 4Å: Chain A: L.549, Y.553, F.644, L.645, E.646 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.646 Water bridges: A:Y.553 pi-Cation interactions: A:Y.553 DMS.11: 3 residues within 4Å: Chain A: Y.726, H.767, D.769 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.769 DMS.12: 3 residues within 4Å: Chain A: T.197, P.199, L.222 No protein-ligand interaction detected (PLIP) DMS.13: 7 residues within 4Å: Chain A: R.427, H.443, I.467, F.468, K.469, D.470, F.471 No protein-ligand interaction detected (PLIP) DMS.14: 2 residues within 4Å: Chain A: R.33, H.36 No protein-ligand interaction detected (PLIP) DMS.15: 4 residues within 4Å: Chain A: Q.408, L.411, N.412, A.415 No protein-ligand interaction detected (PLIP) DMS.16: 4 residues within 4Å: Chain A: L.271, N.274, K.294 Ligands: DMS.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.274

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Czifrak, K. et al., Tracking structure activity relationships of glycogen phosphorylase inhibitors: synthesis, kinetic and crystallographic evaluation of analogues of N-(-D-glucopyranosyl)-N'-oxamides. To be Published

Release Date

2009-04-21

Peptides

Glycogen phosphorylase, muscle form: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Glycogen phosphorylase, muscle form

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