Crystal Structure of Bacterial Ribonuclease P RNA

Experimental Data Snapshot

  • Resolution: 3.30 Å
  • R-Value Free: 0.340 
  • R-Value Work: 0.320 
  • R-Value Observed: 0.321 

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Crystal structure of a bacterial ribonuclease P RNA.

Kazantsev, A.V.Krivenko, A.A.Harrington, D.J.Holbrook, S.R.Adams, P.D.Pace, N.R.

(2005) Proc Natl Acad Sci U S A 102: 13392-13397

  • DOI: https://doi.org/10.1073/pnas.0506662102
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    The x-ray crystal structure of a 417-nt ribonuclease P RNA from Bacillus stearothermophilus was solved to 3.3-A resolution. This RNA enzyme is constructed from a number of coaxially stacked helical domains joined together by local and long-range interactions. These helical domains are arranged to form a remarkably flat surface, which is implicated by a wealth of biochemical data in the binding and cleavage of the precursors of transfer RNA substrate. Previous photoaffinity crosslinking data are used to position the substrate on the crystal structure and to identify the chemically active site of the ribozyme. This site is located in a highly conserved core structure formed by intricately interlaced long-range interactions between interhelical sequences.

  • Organizational Affiliation

    Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO 80309, USA.

Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains LengthOrganismImage
ribonuclease P RNA417N/A
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 3.30 Å
  • R-Value Free: 0.340 
  • R-Value Work: 0.320 
  • R-Value Observed: 0.321 
  • Space Group: F 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 147.15α = 90
b = 159.42β = 90
c = 410.21γ = 90
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
d*TREKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-09-20
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-10-11
    Changes: Refinement description
  • Version 1.4: 2021-10-20
    Changes: Database references
  • Version 1.5: 2024-02-14
    Changes: Data collection