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DrawTetrado to create layer diagrams of G4 structures.

ABSTRACT:

Motivation

Quadruplexes are specific 3D structures found in nucleic acids. Due to the exceptional properties of these motifs, their exploration with the general-purpose bioinformatics methods can be problematic or insufficient. The same applies to visualizing their structure. A hand-drawn layer diagram is the most common way to represent the quadruplex anatomy. No molecular visualization software generates such a structural model based on atomic coordinates.

Results

DrawTetrado is an open-source Python program for automated visualization targeting the structures of quadruplexes and G4-helices. It generates static layer diagrams that represent structural data in a pseudo-3D perspective. The possibility to set color schemes, nucleotide labels, inter-element distances or angle of view allows for easy customization of the output drawing.

Availability and implementation

The program is available under the MIT license at https://github.com/RNApolis/drawtetrado.

SUBMITTER: Zurkowski M

PROVIDER: S-EPMC9344840 | biostudies-literature | 2022 Aug

REPOSITORIES: biostudies-literature

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DrawTetrado to create layer diagrams of G4 structures.

Zurkowski Michal M Zok Tomasz T Szachniuk Marta M

Bioinformatics (Oxford, England) 20220801 15

<h4>Motivation</h4>Quadruplexes are specific 3D structures found in nucleic acids. Due to the exceptional properties of these motifs, their exploration with the general-purpose bioinformatics methods can be problematic or insufficient. The same applies to visualizing their structure. A hand-drawn layer diagram is the most common way to represent the quadruplex anatomy. No molecular visualization software generates such a structural model based on atomic coordinates.<h4>Results</h4>DrawTetrado is ...[more]

PMID: 35703937

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