1D1K

MUTATED SHIGA-LIKE TOXIN B SUBUNIT (D17E/W34A) COMPLEXED WITH RECEPTOR GB3 ANALOGUE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.193

Literature

Macromolecules
Sequence Display for 1D1K

Classification: TOXIN

Total Structure Weight: 40689.98

Macromolecule Entities
Molecule Chains Length Organism Details
SHIGA-LIKE TOXIN I SUBUNIT B A, B, C, D, E 69 Phage h30 Fragment: SHIGA TOXIN I BINDING DOMAIN
Mutation: D117E, W134A
Gene Name(s): stxB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.193
  • Space Group: P 1

Unit Cell:

Length (Å) Angle (°)
a = 44.22 α = 106.05
b = 44.13 β = 106.38
c = 53.71 γ = 99.26

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., Brunton, J.L., Read, R.J.

Revision History

  • Version 1_0: 2000-09-20

    Type: Initial release

  • Version 1_1: 2008-04-27

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance

  • Version 1_3: 2012-07-18

    Type: Source and taxonomy

  • Version 1_4: 2017-10-04

    Type: Refinement description