1GRZ

A PREORGANIZED ACTIVE SITE IN THE CRYSTAL STRUCTURE OF THE TETRAHYMENA RIBOZYME


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 5.00 Å
  • R-Value Free: 0.428 
  • R-Value Work: 0.369 
  • R-Value Observed: 0.369 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

A preorganized active site in the crystal structure of the Tetrahymena ribozyme.

Golden, B.L.Gooding, A.R.Podell, E.R.Cech, T.R.

(1998) Science 282: 259-264

  • DOI: 10.1126/science.282.5387.259
  • Primary Citation of Related Structures:  
    1GRZ

  • PubMed Abstract: 
  • Group I introns possess a single active site that catalyzes the two sequential reactions of self-splicing. An RNA comprising the two domains of the Tetrahymena thermophila group I intron catalytic core retains activity, and the 5.0 angstrom crystal structure of this 247-nucleotide ribozyme is now described ...

    Group I introns possess a single active site that catalyzes the two sequential reactions of self-splicing. An RNA comprising the two domains of the Tetrahymena thermophila group I intron catalytic core retains activity, and the 5.0 angstrom crystal structure of this 247-nucleotide ribozyme is now described. Close packing of the two domains forms a shallow cleft capable of binding the short helix that contains the 5' splice site. The helix that provides the binding site for the guanosine substrate deviates significantly from A-form geometry, providing a tight binding pocket. The binding pockets for both the 5' splice site helix and guanosine are formed and oriented in the absence of these substrates. Thus, this large ribozyme is largely preorganized for catalysis, much like a globular protein enzyme.


    Related Citations: 
    • A strategy for crystallization of a ribozyme derived from the Tetrahymena group I intron
      Golden, B.L., Podell, E.R., Gooding, A.R., Cech, T.R.
      (1997) J Mol Biol 270: 711
    • Crystal structure of a group I ribozyme domain: Principles of RNA packing
      Cate, J.H., Gooding, A.R., Podell, E.R., Zhou, K., Golden, B.L., Kundrot, C.E., Cech, T.R., Doudna, J.A.
      (1996) Science 273: 1678

    Organizational Affiliation

    Howard Hughes Medical Institute, Department of Chemistry and Biochemistry, University of Colorado, Boulder, CO 80309-0215, USA. bgolden@petunia.colorado.edu



Macromolecules
Find similar nucleic acids by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsLengthOrganismImage
LSU R-RNA GROUP I INTRONA, B247Tetrahymena thermophila
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 5.00 Å
  • R-Value Free: 0.428 
  • R-Value Work: 0.369 
  • R-Value Observed: 0.369 
  • Space Group: P 42 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 179α = 90
b = 179β = 90
c = 199.3γ = 90
Software Package:
Software NamePurpose
PHASESphasing
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1998-11-24
    Type: Initial release
  • Version 1.1: 2008-05-22
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance