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

J 2014

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 et. al.

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

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

10201 Computer sciences, information science, bioinformatics

Country of publisher

United Kingdom of Great Britain and Northern Ireland

Confidentiality degree

není předmětem státního či obchodního tajemství

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

Abstract

V originále

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

Citovat

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.

@article{1184047,
   author = {Kozlíková, Barbora and Šebestová, Eva and Šustr, Vilém and Brezovský, Jan and Strnad, Ondřej and Daniel, Lukáš and Bednář, David and Pavelka, Antonín and Manak, Martin and Bezděka, Martin and Beneš, Petr and Kotry, Matúš and Gora, Artur Wiktor and Damborský, Jiří and Sochor, Jiří},
   article_number = {18},
   doi = {http://dx.doi.org/10.1093/bioinformatics/btu364},
   keywords = {protein; visualization; tunnel; cavity},
   language = {eng},
   issn = {1367-4803},
   journal = {Bioinformatics},
   title = {CAVER Analyst 1.0: Graphic tool for interactive visualization and analysis of tunnels and channels in protein structures},
   volume = {30},
   year = {2014}
}

TY  - JOUR
ID  - 1184047
AU  - Kozlíková, Barbora - Šebestová, Eva - Šustr, Vilém - Brezovský, Jan - Strnad, Ondřej - Daniel, Lukáš - Bednář, David - Pavelka, Antonín - Manak, Martin - Bezděka, Martin - Beneš, Petr - Kotry, Matúš - Gora, Artur Wiktor - Damborský, Jiří - Sochor, Jiří
PY  - 2014
TI  - CAVER Analyst 1.0: Graphic tool for interactive visualization and analysis of tunnels and channels in protein structures
JF  - Bioinformatics
VL  - 30
IS  - 18
SP  - 2684-2685
EP  - 2684-2685
PB  - Oxford University Press
SN  - 13674803
KW  - protein
KW  - visualization
KW  - tunnel
KW  - cavity
N2  - 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.
ER  -

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. \textit{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.

Detailed Information on Publication Record