1HLF

BINDING OF GLUCOPYRANOSYLIDENE-SPIRO-THIOHYDANTOIN TO GLYCOGEN PHOSPHORYLASE B: KINETIC AND CRYSTALLOGRAPHIC STUD


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.26 Å
  • R-Value Free: 0.221
  • R-Value Work: 0.193

Literature

Macromolecules
Sequence Display for 1HLF

Classification: TRANSFERASE

Total Structure Weight: 97803.38

Macromolecule Entities
Molecule Chains Length Organism Details
GLYCOGEN PHOSPHORYLASE A 842 Oryctolagus cuniculus EC#: 2.4.1.1 IUBMB
Mutation: L380I
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
GL4
Query on GL4

A 8,9,10-TRIHYDROXY-7-HYDROXYMETHYL-2-THIOXO- 6-OXA-1,3-DIAZA-SPIRO[4.5]DECAN-4-ONE
C8 H12 N2 O6 S
OEWLGQKSTDZKFN-WWHASAIZSA-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 %)
GL4 Ki: 5100 - 10900 nM (97) BindingDB

Ki: 2300 nM  BindingMOAD
Ki: 2300 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.26 Å
  • R-Value Free: 0.221
  • R-Value Work: 0.193
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 128.79 α = 90.00
b = 128.79 β = 90.00
c = 116.17 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-12-01
  • Released Date: 2000-12-13
  • Deposition author(s): Oikonomakos, N.G., Skamnaki, V.T., Docsa, T., Toth, B., Gergely, P., Osz, E., Szilagyi, L., Somsak, L.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4