1NPI

Tityus Serrulatus Neurotoxin (Ts1) at atomic resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.16 Å
  • R-Value Free: 0.139 
  • R-Value Work: 0.082 
  • R-Value Observed: 0.088 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural analysis of Tityus serrulatus Ts1 neurotoxin at atomic resolution: insights into interactions with Na+ channels.

Pinheiro, C.B.Marangoni, S.Toyama, M.H.Polikarpov, I.

(2003) Acta Crystallogr D Biol Crystallogr 59: 405-415

  • DOI: 10.1107/s090744490202111x
  • Primary Citation of Related Structures:  
    1NPI

  • PubMed Abstract: 
  • The structure of the Ts1 toxin from the Brazilian scorpion Tityus serrulatus was investigated at atomic resolution using X-ray crystallography. Several positively charged niches exist on the Ts1 molecular surface, two of which were found to coordinate phosphate ions present in the crystallization solution ...

    The structure of the Ts1 toxin from the Brazilian scorpion Tityus serrulatus was investigated at atomic resolution using X-ray crystallography. Several positively charged niches exist on the Ts1 molecular surface, two of which were found to coordinate phosphate ions present in the crystallization solution. One phosphate ion is bound to the conserved basic Lys1 residue at the Ts1 N-terminus and to residue Asn49. The second ion was found to be caged by residues Lys12, Trp54 and Arg56. Lys12 and Tyr/Trp54 residues are strictly conserved in all classical scorpion beta-neurotoxins. The cavity formed by these residues may represent a special scaffold required for interaction between beta-neurotoxins and sodium channels. The charge distribution on the Ts1 surface and the results of earlier chemical modification studies and side-directed mutagenesis experiments strongly indicate that the phosphate-ion positions mark plausible binding sites to the Na(+) channel. The existence of two distinct binding sites on the Ts1 molecular surface provides an explanation for the competition between Ts1, depressant (LqhIT2) and excitatory (AaHIT) neurotoxins.


    Related Citations: 
    • Crystallization and preliminary diffraction data of neurotoxin Ts-c from the venom of the scorpion Tityus serrulatus
      Golubev, A.M., Lee, W.H., Marangoni, S., Novello, J.C., Oliveira, B., Toyama, M.H., Polikarpov, I.
      (1998) Acta Crystallogr D Biol Crystallogr 54: 1440

    Organizational Affiliation

    Laboratório Nacional de Luz Síncrotron (LNLS), CP 6192, CEP 13084-971, Campinas/SP, Brazil.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Toxin VIIA61Tityus serrulatusMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P15226 (Tityus serrulatus)
Explore P15226 
Go to UniProtKB:  P15226
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download Ideal Coordinates CCD File 
B [auth A], C [auth A]PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.16 Å
  • R-Value Free: 0.139 
  • R-Value Work: 0.082 
  • R-Value Observed: 0.088 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 23.25α = 90
b = 36.61β = 105.58
c = 31.1γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEdata reduction
SHELXmodel building
SHELXL-97refinement
SCALEPACKdata scaling
AMoREphasing

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2003-02-25
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Atomic model, Version format compliance