1ECI

ECTATOMIN (WATER SOLUTION, NMR 20 STRUCTURES)


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 20 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Three-dimensional structure of ectatomin from Ectatomma tuberculatum ant venom.

Nolde, D.E.Sobol, A.G.Pluzhnikov, K.A.Grishin, E.V.Arseniev, A.S.

(1995) J Biomol NMR 5: 1-13

  • DOI: 10.1007/BF00227465
  • Primary Citation of Related Structures:  
    1ECI

  • PubMed Abstract: 
  • Two-dimensional 1H NMR techniques were used to determine the spatial structure of ectatomin, a toxin from the venom of the ant Ectatomma tuberculatum. Nearly complete proton resonance assignments for two chains of ectatomin (37 and 34 amino acid residues, respectively) were obtained using 2D TOCSY, DQF-COSY and NOESY experiments ...

    Two-dimensional 1H NMR techniques were used to determine the spatial structure of ectatomin, a toxin from the venom of the ant Ectatomma tuberculatum. Nearly complete proton resonance assignments for two chains of ectatomin (37 and 34 amino acid residues, respectively) were obtained using 2D TOCSY, DQF-COSY and NOESY experiments. The cross-peak volumes in NOESY spectra were used to define the local structure of the protein and generate accurate proton-proton distance constraints employing the MARDIGRAS program. Disulfide bonds were located by analyzing the global fold of ectatomin, calculated with the distance geometry program DIANA. These data, combined with data on the rate of exchange of amide protons with deuterium, were used to obtain a final set of 20 structures by DIANA. These structures were refined by unrestrained energy minimization using the CHARMm program. The resulting rms deviations over 20 structures (excluding the mobile N- and c-termini of each chain) are 0.75 A for backbone heavy atoms, and 1.25 A for all heavy atoms. The conformations of the two chains are similar. Each chain consists of two alpha-helices and a hinge region of four residues; this forms a hairpin structure which is stabilized by disulfide bridges. The hinge regions of the two chains are connected together by a third disulfide bridge. Thus, ectatomin forms a four-alpha-helical bundle structure.


    Related Citations: 
    • Toxic Principle of Selva Ant Venom is a Pore-Forming Protein Transformer
      Arseniev, A.S., Pluzhnikov, K.A., Nolde, D.E., Sobol, A.G., Torgov, M.Yu., Sukhanov, S.V., Grishin, E.V.
      (1994) FEBS Lett 347: 112

    Organizational Affiliation

    Shemyakin and Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ECTATOMINA37Ectatomma tuberculatumMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P49343 (Ectatomma tuberculatum)
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Go to UniProtKB:  P49343
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
ECTATOMINB34Ectatomma tuberculatumMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P49344 (Ectatomma tuberculatum)
Explore P49344 
Go to UniProtKB:  P49344
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 20 
  • OLDERADO: 1ECI Olderado

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1995-12-07
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance