1KC1

Crystal structure of dTDP-6-deoxy-L-lyxo-4-hexulose reductase (RmlD) in complex with NADPH


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.251
  • R-Value Work: 0.169

Literature

Macromolecules
Sequence Display for 1KC1

Classification: OXIDOREDUCTASE

Total Structure Weight: 33455.73

Macromolecule Entities
Molecule Chains Length Organism Details
dTDP-glucose oxidoreductase A 299 Salmonella enterica EC#: 1.1.1.133 IUBMB
Gene Name(s): rfbD rmlD STM2096
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)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
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: 2.6 Å
  • R-Value Free: 0.251
  • R-Value Work: 0.169
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 47.72 α = 90.00
b = 72.47 β = 90.00
c = 82.73 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-11-07
  • Released Date: 2002-06-28
  • Deposition author(s): Blankenfeldt, W., Kerr, I.D., Giraud, M.F., McMiken, H.J., Leonard, G.A., Whitfield, C., Messner, P., Graninger, M., Naismith, J.H.

Revision History

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