1R4Y

SOLUTION STRUCTURE OF THE DELETION MUTANT DELTA(7-22) OF THE CYTOTOXIC RIBONUCLEASE ALPHA-SARCIN


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 25 
  • Selection Criteria: structures with the lowest energy 

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This is version 1.2 of the entry. See complete history


Literature

NMR structure of the noncytotoxic {alpha}-sarcin mutant {Delta}(7-22): The importance of the native conformation of peripheral loops for activity.

Garcia-Mayoral, M.F.Garcia-Ortega, L.Lillo, M.P.Santoro, J.Martinez Del Pozo, A.Gavilanes, J.G.Rico, M.Bruix, M.

(2004) Protein Sci 13: 1000-1011

  • DOI: 10.1110/ps.03532204
  • Primary Citation of Related Structures:  
    1R4Y

  • PubMed Abstract: 
  • The deletion mutant Delta(7-22) of alpha-sarcin, unlike its wild-type protein counterpart, lacks the specific ability to degrade rRNA in intact ribosomes and exhibits an increased unspecific ribonuclease activity and decreased interaction with lipid vesi ...

    The deletion mutant Delta(7-22) of alpha-sarcin, unlike its wild-type protein counterpart, lacks the specific ability to degrade rRNA in intact ribosomes and exhibits an increased unspecific ribonuclease activity and decreased interaction with lipid vesicles. In trying to shed light on these differences, we report here on the three-dimensional structure of the Delta(7-22) alpha-sarcin mutant using NMR methods. We also evaluated its dynamic properties on the basis of theoretical models and measured its correlation time (6.2 nsec) by time-resolved fluorescence anisotropy. The global fold characteristic of ribotoxins is preserved in the mutant. The most significant differences with respect to the alpha-sarcin structure are concentrated in (1) loop 2, (2) loop 3, which adopts a new orientation, and (3) loop 5, which shows multiple conformations and an altered dynamics. The interactions between loop 5 and the N-terminal hairpin are lost in the mutant, producing increased solvent accessibility of the active-site residues. The degree of solvent exposure of the catalytic His 137 is similar to that shown by His 92 in RNase T1. Additionally, the calculated order parameters of residues belonging to loop 5 in the mutant correspond to an internal dynamic behavior more similar to RNase T1 than alpha-sarcin. On the other hand, changes in the relative orientation of loop 3 move the lysine-rich region 111-114, crucial for substrate recognition, away from the active site. All of the structural and dynamic data presented here reveal that the mutant is a hybrid of ribotoxins and noncytotoxic ribonucleases, consistent with its biological properties.


    Related Citations: 
    • Characterization of pKa values and titration shifts in the cytotoxic ribonuclease alpha-sarcin by NMR. Relationship between electrostatic interactions, structure, and catalytic function.
      Perez-Canadillas, J.M., Campos-Olivas, R., Lacadena, J., Martinez del Pozo, A., Gavilanes, J.G., Santoro, J., Rico, M., Bruix, M.
      (1998) Biochemistry 37: 15865
    • Structural basis for the catalytic mechanism and substrate specificity of the ribonuclease alpha-sarcin.
      Campos-Olivas, R., Bruix, M., Santoro, J., Martinez del Pozo, A., Lacadena, J., Gavilanes, J.G., Rico, M.
      (1996) FEBS Lett 399: 163
    • The highly refined solution structure of the cytotoxic ribonuclease alpha-sarcin reveals the structural requirements for substrate recognition and ribonucleolytic activity.
      Perez-Canadillas, J.M., Santoro, J., Campos-Olivas, R., Lacadena, J., Martinez del Pozo, A., Gavilanes, J.G., Rico, M., Bruix, M.
      (2000) J Mol Biol 299: 1061
    • Dissecting structural and electrostatic interactions of charged groups in alpha-sarcin. An NMR study of some mutants involving the catalytic residues.
      Garcia-Mayoral, M.F., Perez-Canadillas, J.M., Santoro, J., Ibarra-Molero, B., Sanchez-Ruiz, J.M., Lacadena, J., Martinez del Pozo, A., Gavilanes, J.G., Rico, M., Bruix, M.
      () To be published --: --

    Organizational Affiliation

    Departamento de Espectroscopía y Estructura Molecular, Instituto de Química Física Rocasolano, Serrano 119, CSIC, 28006 Madrid, Spain.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Ribonuclease alpha-sarcin A136Aspergillus giganteusMutation(s): 2 
Gene Names: sar
EC: 3.1.27.10 (PDB Primary Data), 4.6.1.23 (UniProt)
Find proteins for P00655 (Aspergillus giganteus)
Explore P00655 
Go to UniProtKB:  P00655
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 25 
  • Selection Criteria: structures with the lowest energy 
  • OLDERADO: 1R4Y Olderado

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2004-04-06
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance