1IV2

Structure of 2C-Methyl-D-erythritol-2,4-cyclodiphosphate Synthase (bound form CDP)

Structural Biology Knowledgebase: 1IV2 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.177

Literature

Macromolecules
Sequence Display for 1IV2

Classification: LYASE

Total Structure Weight: 102300.60

Macromolecule Entities
Molecule Chains Length Organism Details
2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase A, B, C..., D, E, FA, B, C, D, E, F 152 Thermus thermophilus EC#: 4.6.1.12 IUBMB
Mutation: L41M, L81M, L120M
Gene Name(s): ispF TTHA1790
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, D, E CYTIDINE-5'-DIPHOSPHATE
C9 H15 N3 O11 P2
ZWIADYZPOWUWEW-XVFCMESISA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, C, D, E, F MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.177
  • Space Group: P 41 21 2

Unit Cell:

Length (Å) Angle (°)
a = 106.10 α = 90.00
b = 106.10 β = 90.00
c = 149.11 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-03-11
  • Released Date: 2002-09-11
  • Deposition author(s): Kishida, H., Wada, T., Unzai, S., Kuzuyama, T., Terada, T., Sirouzu, M., Yokoyama, S., Tame, J.R.H., Park, S.-Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History

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