1PZK

Cholera Toxin B-Pentamer Complexed With N-Acyl Phenyl Galactoside 9h

Structural Biology Knowledgebase: 1PZK SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.173
  • R-Value Work: 0.132

Literature

Macromolecules
Sequence Display for 1PZK

Classification: TOXIN

Total Structure Weight: 61225.55

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 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
J12
Query on J12

D, E, F, G, H N-{3-[4-(3-AMINO-PROPYL)-PIPERAZIN-1-YL]- PROPYL}-3-(2-THIOPHEN-2-YL-ACETYLAMINO)-5- (3,4,5-TRIHYDROXY-6-HYDROXYMETHYL-TETRAHYDRO- PYRAN-2-YLOXY)-BENZAMIDE
C29 H43 N5 O8 S
ZIXIINLBMSXOQV-ADWZMSLQSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
J12 N/A in BindingDB
IC50: 200000 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.173
  • R-Value Work: 0.132
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 102.05 α = 90.00
b = 66.14 β = 105.78
c = 78.18 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

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4