6F3S

The crystal structure of Glycogen Phosphorylase in complex with 10d


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.156 
  • R-Value Work: 0.135 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

A multidisciplinary study of 3-( beta-d-glucopyranosyl)-5-substituted-1,2,4-triazole derivatives as glycogen phosphorylase inhibitors: Computation, synthesis, crystallography and kinetics reveal new potent inhibitors.

Kun, S.Begum, J.Kyriakis, E.Stamati, E.C.V.Barkas, T.A.Szennyes, E.Bokor, E.Szabo, K.E.Stravodimos, G.A.Sipos, A.Docsa, T.Gergely, P.Moffatt, C.Patraskaki, M.S.Kokolaki, M.C.Gkerdi, A.Skamnaki, V.T.Leonidas, D.D.Somsak, L.Hayes, J.M.

(2018) Eur J Med Chem 147: 266-278


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Glycogen phosphorylase, muscle form
A
843Oryctolagus cuniculusMutation(s): 0 
Gene Names: PYGM
EC: 2.4.1.1
Find proteins for P00489 (Oryctolagus cuniculus)
Go to Gene View: PYGM
Go to UniProtKB:  P00489
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PLP
Query on PLP

Download SDF File 
Download CCD File 
A
PYRIDOXAL-5'-PHOSPHATE
VITAMIN B6 Phosphate
C8 H10 N O6 P
NGVDGCNFYWLIFO-UHFFFAOYSA-N
 Ligand Interaction
CKW
Query on CKW

Download SDF File 
Download CCD File 
A
(2~{R},3~{S},4~{R},5~{R},6~{S})-2-(hydroxymethyl)-6-[5-(4-phenylphenyl)-4~{H}-1,2,4-triazol-3-yl]oxane-3,4,5-triol
C20 H21 N3 O5
NIARDQNUDKGRGO-UYTYNIKBSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.156 
  • R-Value Work: 0.135 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 128.763α = 90.00
b = 128.763β = 90.00
c = 116.391γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-02-28
    Type: Initial release