CAVER Analyst 1.0: Graphic tool for interactive visualization and analysis of tunnels and channels in protein structures

KOZLÍKOVÁ, Barbora, Eva ŠEBESTOVÁ, Vilém ŠUSTR, Jan BREZOVSKÝ, Ondřej STRNAD, Lukáš DANIEL, David BEDNÁŘ, Antonín PAVELKA, Martin MANAK, Martin BEZDĚKA, Petr BENEŠ, Matúš KOTRY, Artur Wiktor GORA, Jiří DAMBORSKÝ and Jiří SOCHOR. CAVER Analyst 1.0: Graphic tool for interactive visualization and analysis of tunnels and channels in protein structures. Bioinformatics. Oxford University Press, 2014, vol. 30, No 18, p. 2684-2685. ISSN 1367-4803. Available from: https://dx.doi.org/10.1093/bioinformatics/btu364.

Basic information

• Original name: CAVER Analyst 1.0: Graphic tool for interactive visualization and analysis of tunnels and channels in protein structures
• Name in Czech: CAVER Analyst 1.0: Grafický nástroj pro interaktivní vizualizaci a analýzu tunelů a kanálů v proteinech
• Authors: KOZLÍKOVÁ, Barbora (203 Czech Republic, belonging to the institution), Eva ŠEBESTOVÁ (203 Czech Republic, belonging to the institution), Vilém ŠUSTR (203 Czech Republic, belonging to the institution), Jan BREZOVSKÝ (203 Czech Republic, belonging to the institution), Ondřej STRNAD (203 Czech Republic, belonging to the institution), Lukáš DANIEL (203 Czech Republic, belonging to the institution), David BEDNÁŘ (203 Czech Republic, belonging to the institution), Antonín PAVELKA (203 Czech Republic, belonging to the institution), Martin MANAK (203 Czech Republic), Martin BEZDĚKA (203 Czech Republic, belonging to the institution), Petr BENEŠ (203 Czech Republic, belonging to the institution), Matúš KOTRY (703 Slovakia, belonging to the institution), Artur Wiktor GORA (616 Poland, belonging to the institution), Jiří DAMBORSKÝ (203 Czech Republic, belonging to the institution) and Jiří SOCHOR (203 Czech Republic, guarantor, belonging to the institution).
• Edition: Bioinformatics, Oxford University Press, 2014, 1367-4803.

Other information

• Original language: English
• Type of outcome: Article in a journal
• Field of Study: 10201 Computer sciences, information science, bioinformatics
• Country of publisher: United Kingdom of Great Britain and Northern Ireland
• Confidentiality degree: is not subject to a state or trade secret
• Impact factor: Impact factor: 4.981
• RIV identification code: RIV/00216224:14330/14:00073649
• Organization unit: Faculty of Informatics
• Doi: http://dx.doi.org/10.1093/bioinformatics/btu364
• UT WoS: 000342913000027
• Keywords in English: protein; visualization; tunnel; cavity
• Tags: AKR
• Tags: International impact, Reviewed

Abstract

The transport of ligands, ions or solvent molecules into proteins with buried binding sites or through the membrane is enabled by protein tunnels and channels. CAVER Analyst is a software tool for calculation, analysis and real-time visualization of access tunnels and channels in static and dynamic protein structures. It provides an intuitive graphic user interface for setting up the calculation and interactive exploration of identified tunnels/channels and their characteristics.

Links

• GAP202/10/1435, research and development project: Name: Analýza a vizualizace proteinových struktur

Investor: Czech Science Foundation, Analysis and Visualization of Protein Structures

• LC06008, research and development project: Name: Centrum počítačové grafiky (Acronym: CPG)

Investor: Ministry of Education, Youth and Sports of the CR, Center of Computer Graphics

• MUNI/A/0915/2013, interní kód MU: Name: Výzkum FI ve vybraných oblastech aplikované informatiky (Acronym: FI_Apl_Inf_2014)

Investor: Masaryk University, Category A