Computational Analysis of Protein Tunnels and Channels

C 2018

Computational Analysis of Protein Tunnels and Channels

BREZOVSKÝ, Jan; Barbora KOZLÍKOVÁ a Jiří DAMBORSKÝ

Základní údaje

Originální název

Computational Analysis of Protein Tunnels and Channels

Autoři

BREZOVSKÝ, Jan; Barbora KOZLÍKOVÁ a Jiří DAMBORSKÝ

Vydání

New York, NY, Protein Engineering. Methods in Molecular Biology, od s. 25-42, 18 s. 1685, 2018

Nakladatel

Humana Press

Další údaje

Jazyk

angličtina

Typ výsledku

Kapitola resp. kapitoly v odborné knize

Obor

20400 2.4 Chemical engineering

Stát vydavatele

Spojené státy

Utajení

není předmětem státního či obchodního tajemství

Forma vydání

tištěná verze "print"

Označené pro přenos do RIV

Ano

Kód RIV

RIV/00216224:14310/18:00102092

Organizační jednotka

Přírodovědecká fakulta

ISBN

978-1-4939-7364-4

Klíčová slova anglicky

Binding;Protein;Tunnel;Channel;Gate;Rational design;Software;CAVER;Transport

Štítky

H19

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 25. 10. 2021 13:30, Mgr. Marie Novosadová Šípková, DiS.

Anotace

V originále

Protein tunnels connecting the functional buried cavities with bulk solvent and protein channels, enabling the transport through biological membranes, represent the structural features that govern the exchange rates of ligands, ions, and water solvent. Tunnels and channels are present in a vast number of known proteins and provide control over their function. Modification of these structural features by protein engineering frequently provides proteins with improved properties. Here we present a detailed computational protocol employing the CAVER software that is applicable for: (1) the analysis of tunnels and channels in protein structures, and (2) the selection of hot-spot residues in tunnels or channels that can be mutagenized for improved activity, specificity, enantioselectivity, or stability.

Citovat

BREZOVSKÝ, Jan; Barbora KOZLÍKOVÁ a Jiří DAMBORSKÝ. Computational Analysis of Protein Tunnels and Channels. In Bornscheuer U., Höhne M. Protein Engineering. Methods in Molecular Biology. New York, NY: Humana Press, 2018, s. 25-42. 1685. ISBN 978-1-4939-7364-4. Dostupné z: https://doi.org/10.1007/978-1-4939-7366-8_3.

@inbook{1394439,
   author = {Brezovský, Jan and Kozlíková, Barbora and Damborský, Jiří},
   address = {New York, NY},
   booktitle = {Protein Engineering. Methods in Molecular Biology},
   doi = {https://doi.org/10.1007/978-1-4939-7366-8_3},
   editor = {Bornscheuer U., Höhne M.},
   keywords = {Binding;Protein;Tunnel;Channel;Gate;Rational design;Software;CAVER;Transport},
   howpublished = {tištěná verze "print"},
   language = {eng},
   location = {New York, NY},
   isbn = {978-1-4939-7364-4},
   pages = {25-42},
   publisher = {Humana Press},
   title = {Computational Analysis of Protein Tunnels and Channels},
   year = {2018}
}

TY  - CHAP
ID  - 1394439
AU  - Brezovský, Jan - Kozlíková, Barbora - Damborský, Jiří
PY  - 2018
TI  - Computational Analysis of Protein Tunnels and Channels
VL  - 1685
PB  - Humana Press
CY  - New York, NY
SN  - 9781493973644
KW  - Binding;Protein;Tunnel;Channel;Gate;Rational design;Software;CAVER;Transport
N2  - Protein tunnels connecting the functional buried cavities with bulk solvent and protein channels, enabling the transport through biological membranes, represent the structural features that govern the exchange rates of ligands, ions, and water solvent. Tunnels and channels are present in a vast number of known proteins and provide control over their function. Modification of these structural features by protein engineering frequently provides proteins with improved properties. Here we present a detailed computational protocol employing the CAVER software that is applicable for: (1) the analysis of tunnels and channels in protein structures, and (2) the selection of hot-spot residues in tunnels or channels that can be mutagenized for improved activity, specificity, enantioselectivity, or stability.
ER  -

BREZOVSKÝ, Jan; Barbora KOZLÍKOVÁ a Jiří DAMBORSKÝ. Computational Analysis of Protein Tunnels and Channels. In Bornscheuer U., Höhne M. \textit{Protein Engineering. Methods in Molecular Biology}. New York, NY: Humana Press, 2018, s.~25-42. 1685. ISBN~978-1-4939-7364-4. Dostupné z: https://doi.org/10.1007/978-1-4939-7366-8\_{}3.

Přehled o publikaci