About: Software tools for identification, visualization and analysis of protein tunnels and channels

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An Entity of Type : http://linked.opendata.cz/ontology/domain/vavai/Vysledek, within Data Space : linked.opendata.cz associated with source document(s)

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rdf:type	skos:Concept http://linked.opendata.cz/ontology/domain/vavai/Vysledek
Description	Protein structures contain highly complex systems of voids, making up specific features such as surface clefts or grooves, pockets, protrusions, cavities, pores or channels, and tunnels. Many of them are essential for the migration of solvents, ions and small molecules through proteins, and their binding to the functional sites. Analysis of these structural features is very important for understanding of structure-function relationships, for the design of potential inhibitors or proteins with improved functional properties. Here we critically review existing software tools specialized in rapid identification, visualization, analysis and design of protein tunnels and channels. The strengths and weaknesses of individual tools are reported together with examples of their applications for the analysis and engineering of various biological systems. Protein structures contain highly complex systems of voids, making up specific features such as surface clefts or grooves, pockets, protrusions, cavities, pores or channels, and tunnels. Many of them are essential for the migration of solvents, ions and small molecules through proteins, and their binding to the functional sites. Analysis of these structural features is very important for understanding of structure-function relationships, for the design of potential inhibitors or proteins with improved functional properties. Here we critically review existing software tools specialized in rapid identification, visualization, analysis and design of protein tunnels and channels. The strengths and weaknesses of individual tools are reported together with examples of their applications for the analysis and engineering of various biological systems. (en)
Title	Software tools for identification, visualization and analysis of protein tunnels and channels Software tools for identification, visualization and analysis of protein tunnels and channels (en)
skos:prefLabel	Software tools for identification, visualization and analysis of protein tunnels and channels Software tools for identification, visualization and analysis of protein tunnels and channels (en)
skos:notation	RIV/00216224:14310/13:00065808!RIV14-MSM-14310___
http://linked.open...avai/predkladatel	Přírodovědecká fakulta
http://linked.open...avai/riv/aktivita	P
http://linked.open...avai/riv/aktivity	P(ED0001/01/01), P(GAP202/10/1435), P(GAP503/12/0572), P(IAA401630901), P(LG13010)
http://linked.open...iv/cisloPeriodika	1
http://linked.open...vai/riv/dodaniDat	2014
http://linked.open...aciTvurceVysledku	Pavelka, Antonín Biedermannová, Lada Chovancová, Eva Damborský, Jiří Brezovský, Jan Gora, Artur Wiktor
http://linked.open.../riv/druhVysledku	J - Článek v odborném periodiku
http://linked.open...iv/duvernostUdaju	S - Úplné a pravdivé údaje nepodléhající ochraně podle zvláštních právních předpisů
http://linked.open...titaPredkladatele	Masarykova univerzita / Přírodovědecká fakulta
http://linked.open...dnocenehoVysledku	106162
http://linked.open...ai/riv/idVysledku	RIV/00216224:14310/13:00065808
http://linked.open...riv/jazykVysledku	eng - angličtina
http://linked.open.../riv/klicovaSlova	Tunnel; Channel; Pore; Pathway; Ligand binding; Ligand transport; Substrate entry; Product release; Protein design; Protein engineering (en)
http://linked.open.../riv/klicoveSlovo	Ligand binding Ligand transport Pathway Product release Protein design Protein engineering Substrate entry Pore Tunnel Channel
http://linked.open...odStatuVydavatele	US - Spojené státy americké
http://linked.open...ontrolniKodProRIV	[50EAD6E664FD]
http://linked.open...i/riv/nazevZdroje	BIOTECHNOLOGY ADVANCES
http://linked.open...in/vavai/riv/obor	CE
http://linked.open...ichTvurcuVysledku	6 (xsd:int)
http://linked.open...cetTvurcuVysledku	6 (xsd:int)
http://linked.open...vavai/riv/projekt	Czech Republic representation in the European Research Consortium for Informatics and Mathematics (ERCIM) Construction of a synthetic metabolic pathway for degradation of important environmental pollutant using protein and metabolic engineering CETOCOEN Analysis and Visualization of Protein Structures Evolution of substrate specificity in enzymes acting on xenobiotic compounds
http://linked.open...UplatneniVysledku	2013
http://linked.open...v/svazekPeriodika	31
http://linked.open...iv/tvurceVysledku	Biedermannová, Lada Brezovský, Jan Damborský, Jiří Pavelka, Antonín Šebestová, Eva Gora, Artur Wiktor
http://linked.open...ain/vavai/riv/wos	000315761200004
issn	0734-9750
number of pages	12 (xsd:int)
http://bibframe.org/vocab/doi	10.1016/j.biotechadv.2012.02.002
http://localhost/t...ganizacniJednotka	14310

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