Nucleic acid visualization with UCSF Chimera
| Autor: | Gregory S. Couch, Donna K. Hendrix, Thomas E. Ferrin |
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| Rok vydání: | 2006 |
| Předmět: |
Models
Molecular Carbohydrates Computational biology Biology 010402 general chemistry 01 natural sciences Molecular graphics Computer graphics 03 medical and health sciences Models Information and Computing Sciences Genetics Computer Graphics 30S Base Pairing 030304 developmental biology 50S Software visualization 0303 health sciences Internet Molecular DNA Biological Sciences Small molecule 0104 chemical sciences Visualization Biochemistry Nucleic acid Methods Online RNA Nucleic Acid Conformation Software Environmental Sciences Developmental Biology |
| Zdroj: | Nucleic acids research, vol 34, iss 4 Nucleic Acids Research |
| Popis: | With the increase in the number of large, 3D, high-resolution nucleic acid structures, particularly of the 30S and 50S ribosomal subunits and the intact bacterial ribosome, advancements in the visualization of nucleic acid structural features are essential. Large molecular structures are complicated and detailed, and one goal of visualization software is to allow the user to simplify the display of some features and accent others. We describe an extension to the UCSF Chimera molecular visualization system for the purpose of displaying and highlighting nucleic acid characteristics, including a new representation of sugar pucker, several options for abstraction of base geometries that emphasize stacking and base pairing, and an adaptation of the ribbon backbone to accommodate the nucleic acid backbone. Molecules are displayed and manipulated interactively, allowing the user to change the representations as desired for small molecules, proteins and nucleic acids. This software is available as part of the UCSF Chimera molecular visualization system and thus is integrated with a suite of existing tools for molecular graphics. |
| Databáze: | OpenAIRE |
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