Detailed Information on Publication Record
2018
MOLEonline: a web-based tool for analyzing channels, tunnels and pores (2018 update)
PRAVDA, Lukáš, David SEHNAL, Dominik TOUŠEK, Veronika NAVRÁTILOVÁ, Václav BAZGIER et. al.Basic information
Original name
MOLEonline: a web-based tool for analyzing channels, tunnels and pores (2018 update)
Authors
PRAVDA, Lukáš (203 Czech Republic, belonging to the institution), David SEHNAL (203 Czech Republic, belonging to the institution), Dominik TOUŠEK (203 Czech Republic, belonging to the institution), Veronika NAVRÁTILOVÁ (203 Czech Republic), Václav BAZGIER (203 Czech Republic), Karel BERKA (203 Czech Republic), Radka SVOBODOVÁ VAŘEKOVÁ (203 Czech Republic, belonging to the institution), Jaroslav KOČA (203 Czech Republic, guarantor, belonging to the institution) and Michal OTYEPKA (203 Czech Republic)
Edition
Nucleic Acids Research, Oxford, Oxford University Press, 2018, 0305-1048
Other information
Language
English
Type of outcome
Článek v odborném periodiku
Field of Study
10600 1.6 Biological sciences
Country of publisher
United Kingdom of Great Britain and Northern Ireland
Confidentiality degree
není předmětem státního či obchodního tajemství
Impact factor
Impact factor: 11.147
RIV identification code
RIV/00216224:14740/18:00103406
Organization unit
Central European Institute of Technology
UT WoS
000438374100059
Keywords (in Czech)
tunel; pór; aquaporin; cytochrom; protein; MOLE; software
Keywords in English
tunnel; pore; aquaporine; protein; MOLE; software
Tags
Tags
International impact, Reviewed
Změněno: 24/4/2019 16:40, prof. RNDr. Jaroslav Koča, DrSc.
Abstract
V originále
MOLEonline is an interactive, web-based application for the detection and characterization of channels (pores and tunnels) within biomacromolecular structures. The updated version of MOLEonline overcomes limitations of the previous version by incorporating the recently developed LiteMol Viewer visualization engine and providing a simple, fully interactive user experience. The application enables two modes of calculation: one is dedicated to the analysis of channels while the other was specifically designed for transmembrane pores. As the application can use both PDB and mmCIF formats, it can be leveraged to analyze a wide spectrum of biomacromolecular structures, e.g. stemming from NMR, X-ray and cryo-EM techniques. The tool is interconnected with other bioinformatics tools (e.g., PDBe, CSA, ChannelsDB, OPM, UniProt) to help both setup and the analysis of acquired results. MOLEonline provides unprecedented analytics for the detection and structural characterization of channels, as well as information about their numerous physicochemical features. Here we present the application of MOLEonline for structural analyses of alpha-hemolysin and transient receptor potential mucolipin 1 (TRMP1) pores.
Links
| EF16_013/0001777, research and development project |
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| LM2015047, research and development project |
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| LQ1601, research and development project |
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| 676559, interní kód MU |
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