1PZJ

Cholera Toxin B-Pentamer Complexed With Nitrophenyl Galactoside 5


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.46 Å
  • R-Value Free: 0.159
  • R-Value Work: 0.115

Literature

Macromolecules
Sequence Display for 1PZJ

Classification: TOXIN

Total Structure Weight: 60754.18

Macromolecule Entities
Molecule Chains Length Organism Details
Cholera Toxin B Subunit D, E, F, G, H 103 Vibrio cholerae Gene Name(s): ctxB EN12_07055 ERS013160_03498 ERS013165_03981 ERS013197_06217 ERS013202_03762 ERS013206_03003 ERS013207_03244 ERS013212_03447
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
15B
Query on 15B

D, G, H N-{3-[4-(3-AMINO-PROPYL)-PIPERAZIN-1-YL]- PROPYL}-3-NITRO-5-(GALACTOPYRANOSYL)-BETA- BENZAMIDE
C23 H37 N5 O9
UEIGEWJJVQHIAX-DLBZZEGUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
J15
Query on J15

E, F N-{3-[4-(3-AMINO-PROPYL)-PIPERAZIN-1-YL]- PROPYL}-3-NITRO-5-(GALACTOPYRANOSYL)-ALPHA- BENZAMIDE
C23 H37 N5 O9
UEIGEWJJVQHIAX-MKQKURRLSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
15B N/A in BindingDB
IC50: 320000 nM  BindingMOAD
IC50: 320000 nM  PDBbind
J15 N/A in BindingDB
IC50: 320000 nM  BindingMOAD


Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.46 Å
  • R-Value Free: 0.159
  • R-Value Work: 0.115
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 101.75 α = 90.00
b = 66.00 β = 105.44
c = 77.36 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-07-11
  • Released Date: 2004-03-09
  • Deposition author(s): Mitchell, D.D., Pickens, J.C., Korotkov, K., Fan, E., Hol, W.G.J.

Revision History

  • Version 1_0: 2004-03-09

    Type: Initial release

  • Version 1_1: 2008-04-29

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance