1Q0H

Crystal structure of selenomethionine-labelled DXR in complex with fosmidomycin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.212
  • R-Value Work: 0.187

Literature

Macromolecules
Sequence Display for 1Q0H

Classification: OXIDOREDUCTASE

Total Structure Weight: 46416.52

Macromolecule Entities
Molecule Chains Length Organism Details
1-deoxy-D-xylulose 5-phosphate reductoisomerase A 406 Escherichia coli EC#: 1.1.1.267 IUBMB
Mutation: M1M, M42M, M56M, M68M, M88M, M98M, M136M, M201M, M214M, M225M, M226M, M246M, M259M, M276M, M284M, M322M, M367M, M369M, M394M
Gene Name(s): dxr ispC yaeM b0173 JW0168
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
C21 H30 N7 O17 P3
ACFIXJIJDZMPPO-NNYOXOHSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CIT
Query on CIT

A CITRIC ACID
C6 H8 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FOM
Query on FOM

A 3-[FORMYL(HYDROXY)AMINO]PROPYLPHOSPHONIC ACID
FOSMIDOMYCIN (Synonym)
C4 H10 N O5 P
GJXWDTUCERCKIX-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
FOM IC50: 20 - 438 nM (100) BindingDB

Ki: 21 nM  BindingMOAD
N/A in PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.212
  • R-Value Work: 0.187
  • Space Group: P 31 2 1

Unit Cell:

Length (Å) Angle (°)
a = 109.17 α = 90.00
b = 109.17 β = 90.00
c = 90.63 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-07-16
  • Released Date: 2004-07-20
  • Deposition author(s): Mac Sweeney, A., Lange, R., D'Arcy, A., Douangamath, A., Surivet, J.-P., Oefner, C.

Revision History

  • Version 1_0: 2004-07-20

    Type: Initial release

  • Version 1_1: 2008-04-29

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Derived calculations, Version format compliance