3BXF

Crystal structure of effector binding domain of central glycolytic gene regulator (CggR) from Bacillus subtilis in complex with effector fructose-1,6-bisphosphate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.201

Literature

Macromolecules
Sequence Display for 3BXF

Classification: GENE REGULATION

Total Structure Weight: 55773.00

Macromolecule Entities
Molecule Chains Length Organism Details
Central glycolytic gene regulator A, B 255 Bacillus subtilis Fragment: Effector binding domain: Residues 89-340
Gene Name(s): cggR yvbQ BSU33950
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A BETA-FRUCTOSE-1,6-DIPHOSPHATE
FRUCTOSE-1,6-BISPHOSPHATE (Synonym)
C6 H14 O12 P2
RNBGYGVWRKECFJ-ARQDHWQXSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
13P
Query on 13P

B 1,3-DIHYDROXYACETONEPHOSPHATE
C3 H7 O6 P
GNGACRATGGDKBX-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
FBP N/A in BindingDB
Kd: 2870 nM  BindingMOAD
Kd: 2870 nM  PDBbind
13P N/A in BindingDB
Kd: 3340 nM  BindingMOAD


Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.201
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 51.45 α = 90.00
b = 83.25 β = 90.00
c = 116.46 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-01-13
  • Released Date: 2008-07-01
  • Deposition author(s): Rezacova, P., Otwinowski, Z.

Revision History

  • Version 1_0: 2008-07-01

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Advisory, Version format compliance