1OJ4

TERNARY COMPLEX OF 4-DIPHOSPHOCYTIDYL-2-C-METHYL-D-ERYTHRITOL KINASE

Structural Biology Knowledgebase: 1OJ4 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free: 0.202
  • R-Value Work: 0.166

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1OJ4

Classification: TRANSFERASE

Total Structure Weight: 64624.41

Macromolecule Entities
Molecule Chains Length Organism Details
4-DIPHOSPHOCYTIDYL-2-C-METHYL-D-ERYTHRITOL KINASE A, B 283 Escherichia coli EC#: 2.7.1.148 IUBMB
Mutation: S85P, M161T
Gene Name(s): ispE c1666
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B 4-DIPHOSPHOCYTIDYL-2-C-METHYL-D-ERYTHRITOL
C14 H25 N3 O14 P2
YFAUKWZNPVBCFF-XHIBXCGHSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ANP
Query on ANP

A, B PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
C10 H17 N6 O12 P3
PVKSNHVPLWYQGJ-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free: 0.202
  • R-Value Work: 0.166
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 61.00 α = 90.00
b = 76.30 β = 107.80
c = 68.60 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-06-30
  • Released Date: 2003-07-31
  • Deposition author(s): Miallau, L., Alphey, M.S., Hunter, W.N.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4