Engineering enzyme access tunnels

J 2019

Engineering enzyme access tunnels

KOKKONEN, Piia Pauliina; David BEDNÁŘ; G. PINTO; Zbyněk PROKOP; Jiří DAMBORSKÝ et al.

Základní údaje

Originální název

Engineering enzyme access tunnels

Autoři

KOKKONEN, Piia Pauliina; David BEDNÁŘ; G. PINTO; Zbyněk PROKOP a Jiří DAMBORSKÝ

Vydání

BIOTECHNOLOGY ADVANCES, OXFORD, PERGAMON-ELSEVIER SCIENCE LTD, 2019, 0734-9750

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

30403 Technologies involving identifying the functioning of DNA, proteins and enzymes and how they influence the onset of disease and maintenance of well-being

Stát vydavatele

Velká Británie a Severní Irsko

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 10.744

Označené pro přenos do RIV

Ano

Kód RIV

RIV/00216224:14310/19:00113351

Organizační jednotka

Přírodovědecká fakulta

Klíčová slova anglicky

Tunnel; Channel; Ligand binding; Pathway; Pore; Product release; Protein design; Protein engineering; Substrate entry; Dynamics

Štítky

rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 15. 2. 2023 22:37, Mgr. Michaela Hylsová, Ph.D.

Anotace

V originále

Enzymes are efficient and specific catalysts for many essential reactions in biotechnological and pharmaceutical industries. Many times, the natural enzymes do not display the catalytic efficiency, stability or specificity required for these industrial processes. The current enzyme engineering methods offer solutions to this problem, but they mainly target the buried active site where the chemical reaction takes place. Despite being many times ignored, the tunnels and channels connecting the environment with the active site are equally important for the catalytic properties of enzymes. Changes in the enzymatic tunnels and channels affect enzyme activity, specificity, promiscuity, enantioselectivity and stability. This review provides an overview of the emerging field of enzyme access tunnel engineering with case studies describing design of all the aforementioned properties. The software tools for the analysis of geometry and function of the enzymatic tunnels and channels and for the rational design of tunnel modifications will also be discussed. The combination of new software tools and enzyme engineering strategies will provide enzymes with access tunnels and channels specifically tailored for individual industrial processes.

Návaznosti

EF16_013/0001761, projekt VaV

Název: RECETOX RI

EF17_050/0008496, projekt VaV

Název: MSCAfellow@MUNI

LM2015047, projekt VaV

Název: Česká národní infrastruktura pro biologická data (Akronym: ELIXIR-CZ)

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, Česká národní infrastruktura pro biologická data

LM2015055, projekt VaV

Název: Centrum pro systémovou biologii (Akronym: C4SYS)

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, The national infrastructure C4SYS - Centre for Systems Biology

LM2015085, projekt VaV

Název: CERIT Scientific Cloud (Akronym: CERIT-SC)

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, CERIT Scientific Cloud

Přiložené soubory

Kokkonen_Engineering_Enzyme_Access_Tunnels_2019.pdf

Citovat

KOKKONEN, Piia Pauliina; David BEDNÁŘ; G. PINTO; Zbyněk PROKOP a Jiří DAMBORSKÝ. Engineering enzyme access tunnels. BIOTECHNOLOGY ADVANCES. OXFORD: PERGAMON-ELSEVIER SCIENCE LTD, 2019, roč. 37, č. 6, s. 1-13. ISSN 0734-9750. Dostupné z: https://doi.org/10.1016/j.biotechadv.2019.04.008.

@article{1639257,
   author = {Kokkonen, Piia Pauliina and Bednář, David and Pinto, G. and Prokop, Zbyněk and Damborský, Jiří},
   article_location = {OXFORD},
   article_number = {6},
   doi = {https://doi.org/10.1016/j.biotechadv.2019.04.008},
   keywords = {Tunnel; Channel; Ligand binding; Pathway; Pore; Product release; Protein design; Protein engineering; Substrate entry; Dynamics},
   language = {eng},
   issn = {0734-9750},
   journal = {BIOTECHNOLOGY ADVANCES},
   title = {Engineering enzyme access tunnels},
   url = {http://dx.doi.org/10.1016/j.biotechadv.2019.04.008},
   volume = {37},
   year = {2019}
}

TY  - JOUR
ID  - 1639257
AU  - Kokkonen, Piia Pauliina - Bednář, David - Pinto, G. - Prokop, Zbyněk - Damborský, Jiří
PY  - 2019
TI  - Engineering enzyme access tunnels
JF  - BIOTECHNOLOGY ADVANCES
VL  - 37
IS  - 6
SP  - 1-13
EP  - 1-13
PB  - PERGAMON-ELSEVIER SCIENCE LTD
SN  - 07349750
KW  - Tunnel
KW  - Channel
KW  - Ligand binding
KW  - Pathway
KW  - Pore
KW  - Product release
KW  - Protein design
KW  - Protein engineering
KW  - Substrate entry
KW  - Dynamics
UR  - http://dx.doi.org/10.1016/j.biotechadv.2019.04.008
L2  - http://dx.doi.org/10.1016/j.biotechadv.2019.04.008
N2  - Enzymes are efficient and specific catalysts for many essential reactions in biotechnological and pharmaceutical industries. Many times, the natural enzymes do not display the catalytic efficiency, stability or specificity required for these industrial processes. The current enzyme engineering methods offer solutions to this problem, but they mainly target the buried active site where the chemical reaction takes place. Despite being many times ignored, the tunnels and channels connecting the environment with the active site are equally important for the catalytic properties of enzymes. Changes in the enzymatic tunnels and channels affect enzyme activity, specificity, promiscuity, enantioselectivity and stability. This review provides an overview of the emerging field of enzyme access tunnel engineering with case studies describing design of all the aforementioned properties. The software tools for the analysis of geometry and function of the enzymatic tunnels and channels and for the rational design of tunnel modifications will also be discussed. The combination of new software tools and enzyme engineering strategies will provide enzymes with access tunnels and channels specifically tailored for individual industrial processes.
ER  -

KOKKONEN, Piia Pauliina; David BEDNÁŘ; G. PINTO; Zbyněk PROKOP a Jiří DAMBORSKÝ. Engineering enzyme access tunnels. \textit{BIOTECHNOLOGY ADVANCES}. OXFORD: PERGAMON-ELSEVIER SCIENCE LTD, 2019, roč.~37, č.~6, s.~1-13. ISSN~0734-9750. Dostupné z: https://doi.org/10.1016/j.biotechadv.2019.04.008.

Přehled o publikaci