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Published on: July 16, 2017
PROTMAP2D: visualization, comparison and analysis of 2D maps of protein structure
Michal J Pietal1, Irina Tuszynska, Janusz M Bujnicki
1Laboratory of Bioinformatics and Protein Engineering, International Institute of Molecular and Cell Biology, Trojdena 4, Warsaw, Poland.
Bioinformatics (Oxford, England)
|April 3, 2007
Summary
PROTMAP2D is a software tool that generates protein contact and distance maps for structural comparison. It enables quantitative analysis and visualization of protein structure similarity, aiding in bioinformatics and structural biology research.
Area of Science:
- Structural biology
- Bioinformatics
- Computational biology
Background:
- Protein structure comparison is crucial in structural biology and bioinformatics.
- Two-dimensional (2D) distance and contact maps capture essential structural information.
- Comparing 2D maps provides a sensitive measure of protein structure similarity.
Purpose of the Study:
- To introduce PROTMAP2D, a software tool for calculating and comparing protein contact and distance maps.
- To facilitate quantitative comparison of protein structures based on 2D map analysis.
- To aid in the visualization and analysis of structural variations and similarities.
Main Methods:
- Generation of 2D contact and distance maps based on user-defined criteria.
- Quantitative comparison of map overlaps to assess structural similarity.
- Visualization of comparison results for detailed analysis.
Main Results:
- PROTMAP2D allows for the calculation of contact and distance maps.
- The software enables quantitative comparison of multiple protein structures.
- Results can be visualized for intuitive analysis of structural relationships.
Conclusions:
- PROTMAP2D is a valuable tool for protein structure comparison.
- The software supports analysis of various structural datasets, including alternative models and simulation trajectories.
- PROTMAP2D enhances the study of protein structure similarity in bioinformatics and structural biology.
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