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Related Experiment Videos

A secondary and tertiary structure editor for nucleic acids.

R Cedergren1, D Gautheret, G Lapalme

  • 1Départment de Biochimie, Université de Montréal, Québec, Canada.

Computer Applications in the Biosciences : CABIOS
|March 1, 1988
PubMed
Summary

This study introduces a novel structure editor for visualizing nucleic acid structures. The software facilitates the construction and representation of secondary and tertiary structures, aiding biopolymer research.

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Area of Science:

  • Computational Biology
  • Structural Biology
  • Bioinformatics

Background:

  • Evaluating nucleic acid structures is challenging due to limited construction and representation methods.
  • Symbolic representation of biopolymers is crucial for structural analysis.

Purpose of the Study:

  • To develop a user-friendly structure editor for nucleic acid modeling.
  • To enable the visualization and manipulation of nucleic acid secondary and tertiary structures.
  • To facilitate the study of symbolic representations in biopolymers.

Main Methods:

  • Development of a structure editor program written in Pascal for personal computers.
  • Implementation of energy calculations for helical regions.
  • Inclusion of user-defined helix parameters and display options for secondary structures.

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  • Capability for 3D visualization of nucleic acid models.

    • Main Results:

    • The developed editor allows on-screen model construction and manipulation of nucleic acid structures.
    • It calculates helical region energies and displays secondary structures based on user input.
    • The software provides both 2D (backbone or primary sequence) and 3D structural representations.
    • Users can manipulate helical and single-stranded regions to observe spatial changes.

    Conclusions:

    • The structure editor provides a convenient tool for constructing and representing nucleic acid secondary and tertiary structures.
    • This software aids in the symbolic representation and analysis of biopolymers.
    • The 3D visualization capabilities enhance the understanding of complex molecular architectures.