1T0A

Crystal Structure of 2C-Methyl-D-Erythritol-2,4-cyclodiphosphate Synthase from Shewanella Oneidensis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.193
  • R-Value Work: 0.174

Literature

Macromolecules
Sequence Display for 1T0A

Classification: LYASE

Total Structure Weight: 52236.30

Macromolecule Entities
Molecule Chains Length Organism Details
2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase A, B, C 159 Shewanella oneidensis EC#: 4.6.1.12 IUBMB
Mutation: M54M, M107M, M114M
Gene Name(s): ispF SO_3437
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A FARNESYL DIPHOSPHATE
C15 H28 O7 P2
VWFJDQUYCIWHTN-YFVJMOTDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B, C ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CO
Query on CO

A, B, C COBALT (II) ION
Co
XLJKHNWPARRRJB-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B, C L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.193
  • R-Value Work: 0.174
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 117.09 α = 90.00
b = 117.09 β = 90.00
c = 108.94 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-04-08
  • Released Date: 2004-10-26
  • Deposition author(s): Ni, S., Robinson, H., Marsing, G.C., Bussiere, D.E., Kennedy, M.A.

Revision History

  • 2008-04-30
    Type: Version format compliance
  • 2011-07-13
    Type: Source and taxonomy, Version format compliance