1JKI

myo-Inositol-1-phosphate Synthase Complexed with an Inhibitor, 2-deoxy-glucitol-6-phosphate

Structural Biology Knowledgebase: 1JKI SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.208

Literature

Macromolecules
Sequence Display for 1JKI

Classification: ISOMERASE

Total Structure Weight: 121276.23

Macromolecule Entities
Molecule Chains Length Organism Details
myo-inositol-1-phosphate synthase A, B 533 Saccharomyces cerevisiae EC#: 5.5.1.4 IUBMB
Gene Name(s): INO1 YJL153C J0610
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE
NADH (Synonym)
C21 H29 N7 O14 P2
BOPGDPNILDQYTO-NNYOXOHSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DG6
Query on DG6

A, B 2-DEOXY-GLUCITOL-6-PHOSPHATE
C6 H15 O8 P
KLPBNGZTTQNYHR-PBXRRBTRSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NH4
Query on NH4

A, B AMMONIUM ION
H4 N
QGZKDVFQNNGYKY-UHFFFAOYSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
DG6 N/A in BindingDB
Ki: 6000 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.208
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 152.73 α = 90.00
b = 98.31 β = 126.09
c = 121.86 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-07-12
  • Released Date: 2002-04-10
  • Deposition author(s): Stein, A.J., Geiger, J.H.

Revision History

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