2FET

Synthesis of C-D-Glycopyranosyl-Hydroquinones and-Benzoquinones. Inhibition of PTP1B. Inhibition of and binding to glycogen phosphorylase in the crystal


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free: 0.213
  • R-Value Work: 0.188

Literature

Macromolecules
Sequence Display for 2FET

Classification: TRANSFERASE

Total Structure Weight: 97810.59

Macromolecule Entities
Molecule Chains Length Organism Details
Glycogen phosphorylase, muscle form A 842 Oryctolagus cuniculus EC#: 2.4.1.1 IUBMB
Details: PYRIDOXAL-5'-PHOSPHATE bound
Gene Name(s): PYGM Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
H53
Query on H53

A 2-(2,5-DIHYDROXYPHENYL)-6-(HYDROXYMETHYL)OXANE- 3,4,5-TRIOL
C12 H16 O7
QRWWXASRKFWQRP-ZIQFBCGOSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PLP
Query on PLP

A PYRIDOXAL-5'-PHOSPHATE
VITAMIN B6 Phosphate (Synonym)
C8 H10 N O6 P
NGVDGCNFYWLIFO-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
H53 IC50: 977000 nM (100) BindingDB
Ki: 900000 nM (100) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free: 0.213
  • R-Value Work: 0.188
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 128.31 α = 90.00
b = 128.31 β = 90.00
c = 116.05 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-12-16
  • Released Date: 2006-12-19
  • Deposition author(s): Chrysina, E.D., Kosmopoulou, M.N., Leonidas, D.D., Oikonomakos, N.G.

Revision History

  • 2008-05-01
    Type: Version format compliance
  • 2011-07-13
    Type: Derived calculations, Version format compliance