2ZHG

Crystal structure of SoxR in complex with DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.281
  • R-Value Work: 0.243

Literature

Macromolecules
Sequence Display for 2ZHG

Classification: TRANSCRIPTION / DNA

Total Structure Weight: 23733.90


Macromolecule Entities
Molecule Chains Length Organism Details
Redox-sensitive transcriptional activator soxR A 154 Escherichia coli Gene Name(s): soxR marC b4063 JW4024
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*DGP*DCP*DCP*DTP*DCP*DAP*DAP*DGP*DTP*DTP*DAP*DAP*DCP*DTP*DTP*DGP*DAP*DGP*DGP*DC)-3') B 20 synthetic

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

A FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DTT
Query on DTT

A 2,3-DIHYDROXY-1,4-DITHIOBUTANE
1,4-DITHIOTHREITOL (Synonym)
C4 H10 O2 S2
VHJLVAABSRFDPM-IMJSIDKUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.281
  • R-Value Work: 0.243
  • Space Group: P 61 2 2

Unit Cell:

Length (Å) Angle (°)
a = 53.37 α = 90.00
b = 53.37 β = 90.00
c = 355.16 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-02-05
  • Released Date: 2008-03-25
  • Deposition author(s): Watanabe, S., Kita, A., Kobayashi, K., Miki, K.

Revision History

  • Version 1_0: 2008-03-25

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Source and taxonomy, Version format compliance