1INI

CRYSTAL STRUCTURE OF 4-DIPHOSPHOCYTIDYL-2-C-METHYLERYTHRITOL (CDP-ME) SYNTHETASE (YGBP) INVOLVED IN MEVALONATE INDEPENDENT ISOPRENOID BIOSYNTHESIS, COMPLEXED WITH CDP-ME AND MG2+


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.82 Å
  • R-Value Free: 0.273
  • R-Value Work: 0.222

Literature

Macromolecules
Sequence Display for 1INI

Classification: TRANSFERASE

Total Structure Weight: 26317.88

Macromolecule Entities
Molecule Chains Length Organism Details
4-DIPHOSPHOCYTIDYL-2-C-METHYLERYTHRITOL SYNTHETASE A 236 Escherichia coli EC#: 2.7.7.60 IUBMB
Gene Name(s): ispD ygbP b2747 JW2717
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

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

A 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: 1.82 Å
  • R-Value Free: 0.273
  • R-Value Work: 0.222
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 129.99 α = 90.00
b = 46.76 β = 92.64
c = 38.39 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-05-14
  • Released Date: 2001-11-14
  • Deposition author(s): Richard, S.B., Bowman, M.E., Kwiatkowski, W., Kang, I., Chow, C., Lillo, A., Cane, D.E., Noel, J.P.

Revision History

  • 2008-04-27
    Type: Version format compliance
  • 2011-07-13
    Type: Derived calculations, Source and taxonomy, Version format compliance