1PTO

THE STRUCTURE OF A PERTUSSIS TOXIN-SUGAR COMPLEX AS A MODEL FOR RECEPTOR BINDING

Structural Biology Knowledgebase: 1PTO SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Observed: 0.183

Literature

Macromolecules
Sequence Display for 1PTO

Classification: TOXIN

Total Structure Weight: 212513.89

Macromolecule Entities
Molecule Chains Length Organism Details
PERTUSSIS TOXIN (SUBUNIT S1) A, G 244 Bordetella pertussis Gene Name(s): ptxA BP3783
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PERTUSSIS TOXIN B 196 Bordetella pertussis Details: SACCHARIDE CONTAINS TERMINAL N-ACETYLNEURAMINIC ACID (ALPHA 2,6) GALACTOSE
Gene Name(s): ptxB BP3784
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PERTUSSIS TOXIN C, I 196 Bordetella pertussis Details: SACCHARIDE CONTAINS TERMINAL N-ACETYLNEURAMINIC ACID (ALPHA 2,6) GALACTOSE
Gene Name(s): ptxC BP3787
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PERTUSSIS TOXIN (SUBUNIT S4) D, E, J, K 110 Bordetella pertussis Gene Name(s): ptxD BP3785
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PERTUSSIS TOXIN (SUBUNIT S5) F, L 98 Bordetella pertussis Gene Name(s): ptxE BP3786
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PERTUSSIS TOXIN (SUBUNIT S2) H 198 Bordetella pertussis Gene Name(s): ptxB BP3784

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

B, C, I O-SIALIC ACID
C11 H19 N O9
SQVRNKJHWKZAKO-YRMXFSIDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GAL
Query on GAL

B, C, I BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Observed: 0.183
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 163.80 α = 90.00
b = 98.20 β = 90.00
c = 194.50 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1994-03-22
  • Released Date: 1995-09-15
  • Deposition author(s): Stein, P.E., Read, R.J.

Revision History

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