5CY0

Total Chemical Synthesis, Covalent Structure Verification, and X-ray Structure of Bioactive Ts3 Toxin by Racemic Protein Crystallography


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.93 Å
  • R-Value Free: 0.304 
  • R-Value Work: 0.256 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

Elucidation of the Covalent and Tertiary Structures of Biologically Active Ts3 Toxin.

Dang, B.Kubota, T.Mandal, K.Correa, A.M.Bezanilla, F.Kent, S.B.

(2016) Angew.Chem.Int.Ed.Engl. 55: 8639-8642

  • DOI: 10.1002/anie.201603420

  • PubMed Abstract: 
  • Ts3 is an alpha scorpion toxin from the venom of the Brazilian scorpion Tityus serrulatus. Ts3 binds to the domain IV voltage sensor of voltage-gated sodium channels (Nav ) and slows down their fast inactivation. The covalent structure of the Ts3 tox ...

    Ts3 is an alpha scorpion toxin from the venom of the Brazilian scorpion Tityus serrulatus. Ts3 binds to the domain IV voltage sensor of voltage-gated sodium channels (Nav ) and slows down their fast inactivation. The covalent structure of the Ts3 toxin is uncertain, and the structure of the folded protein molecule is unknown. Herein, we report the total chemical synthesis of four candidate Ts3 toxin protein molecules and the results of structure-activity studies that enabled us to establish the covalent structure of biologically active Ts3 toxin. We also report the synthesis of the mirror image form of the Ts3 protein molecule, and the use of racemic protein crystallography to determine the folded (tertiary) structure of biologically active Ts3 toxin by X-ray diffraction.


    Organizational Affiliation

    Department of Chemistry, University of Chicago, Chicago, IL, 60637, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ts3 Toxin
A
64Tityus serrulatusMutation(s): 0 
Find proteins for P01496 (Tityus serrulatus)
Go to UniProtKB:  P01496
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.93 Å
  • R-Value Free: 0.304 
  • R-Value Work: 0.256 
  • Space Group: P -1
Unit Cell:
Length (Å)Angle (°)
a = 19.322α = 101.17
b = 30.406β = 91.26
c = 52.468γ = 98.61
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
PHASERphasing
XDSdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesU54 GM087519
National Institutes of Health/National Institute of General Medical SciencesUnited StatesR01- GM030376
American Heart AssociationUnited States13POST14800031
National Institutes of Health/National Institute of General Medical SciencesUnited StatesP41 GM103403

Revision History 

  • Version 1.0: 2016-06-01
    Type: Initial release
  • Version 1.1: 2016-06-15
    Type: Database references
  • Version 1.2: 2016-07-27
    Type: Database references
  • Version 1.3: 2017-09-13
    Type: Author supporting evidence, Database references, Derived calculations
  • Version 1.4: 2018-01-17
    Type: Author supporting evidence