2C5C

Shiga-like toxin 1 B subunit complexed with a bivalent inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.94 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.198 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Extensive Cross-Linking of the Shiga-Like Toxin 1 B Subunit by a Bivalent Ligand

Dodd, R.B.Read, R.J.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
SHIGA-LIKE TOXIN 1 B SUBUNIT
A, B, C, D, E, F, G, H, I, J
69Bacteriophage H30Mutation(s): 0 
Gene Names: stxB
Find proteins for P69178 (Bacteriophage H30)
Go to UniProtKB:  P69178
Small Molecules
Ligands 6 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
S10
Query on S10

Download SDF File 
Download CCD File 
A, C, D, E, F, I, J
DIETHYL PROPANE-1,3-DIYLBISCARBAMATE
C9 H18 N2 O4
BWWHOVJFNMPUKF-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
I
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
BGC
Query on BGC

Download SDF File 
Download CCD File 
D, I
BETA-D-GLUCOSE
C6 H12 O6
WQZGKKKJIJFFOK-VFUOTHLCSA-N
 Ligand Interaction
GAL
Query on GAL

Download SDF File 
Download CCD File 
A, B, C, D, E, H, J
BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
 Ligand Interaction
GLC
Query on GLC

Download SDF File 
Download CCD File 
A, B, C, E, H, J
ALPHA-D-GLUCOSE
C6 H12 O6
WQZGKKKJIJFFOK-DVKNGEFBSA-N
 Ligand Interaction
GLA
Query on GLA

Download SDF File 
Download CCD File 
A, B, C, D, E, G, H, I, J
ALPHA D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-PHYPRBDBSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.94 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.198 
  • Space Group: H 3 2
Unit Cell:
Length (Å)Angle (°)
a = 114.313α = 90.00
b = 114.313β = 90.00
c = 406.936γ = 120.00
Software Package:
Software NamePurpose
SCALAdata scaling
AMoREphasing
REFMACrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2005-10-26 
  • Released Date: 2006-11-27 
  • Deposition Author(s): Dodd, R.B., Read, R.J.

Revision History 

  • Version 1.0: 2006-11-27
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance