1D1I

MUTATED SHIGA-LIKE TOXIN B SUBUNIT (W34A) COMPLEXED WITH RECEPTOR GB3 ANALOGUE

Structural Biology Knowledgebase: 1D1I SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.211
  • R-Value Work: 0.191

Literature

Macromolecules
Sequence Display for 1D1I

Classification: TOXIN

Total Structure Weight: 40782.32

Macromolecule Entities
Molecule Chains Length Organism Details
SHIGA TOXIN B-CHAIN A, B, C, D, E 69 Escherichia coli Fragment: SHIGA TOXIN I BINDING DOMAIN
Mutation: W134A
Gene Name(s): stxB sltB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D, E ALPHA D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-PHYPRBDBSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GAL
Query on GAL

A, B, C, D, E BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BGC
Query on BGC

A, B, C, D, E BETA-D-GLUCOSE
C6 H12 O6
WQZGKKKJIJFFOK-VFUOTHLCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.211
  • R-Value Work: 0.191
  • Space Group: P 1

Unit Cell:

Length (Å) Angle (°)
a = 44.23 α = 106.04
b = 44.14 β = 106.37
c = 53.88 γ = 99.22

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-09-17
  • Released Date: 2000-09-20
  • Deposition author(s): Ling, H., Boodhoo, A., Brunton, J.L., Read, R.J.

Revision History

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