2FFR

Crystallographic studies on N-azido-beta-D-glucopyranosylamine, an inhibitor of glycogen phosphorylase: comparison with N-acetyl-beta-D-glucopyranosylamine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.184

Literature

Macromolecules
Sequence Display for 2FFR

Classification: TRANSFERASE

Total Structure Weight: 95790.27

Macromolecule Entities
Molecule Chains Length Organism Details
Glycogen phosphorylase, muscle form A 825 Oryctolagus cuniculus EC#: 2.4.1.1 IUBMB
Mutation: V322R, R323V
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
DL6
Query on DL6

A 2-AZIDO-N-((2R,3R,4S,5S,6R)-3,4,5-TRIHYDROXY- 6-(HYDROXYMETHYL)-TETRAHYDRO-2H-PYRAN-2-YL)ACETAMIDE
N-AZIDOACETYL-BETA-D-GLUCOPYRANOSYLAMINE (Synonym)
C8 H14 N4 O6
ACLUEOOMMLAETN-RHROMQPHSA-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 %)
DL6 Ki: 49000 nM (99) 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: 0.199
  • R-Value Work: 0.184
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 128.63 α = 90.00
b = 128.63 β = 90.00
c = 116.16 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-12-20
  • Released Date: 2006-06-20
  • Deposition author(s): Petsalakis, E.I., Chrysina, E.D., Tiraidis, C., Hadjiloi, T., Leonidas, D.D., Oikonomakos, N.G., Aich, U., Varghese, B., Loganathan, D.

Revision History

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