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Catalytic Mechanism of Processive GlfT2: Transition Path Sampling Investigation of Substrate Translocation

The result's identifiers

  • Result code in IS VaVaI

    <a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14740%2F20%3A00117962" target="_blank" >RIV/00216224:14740/20:00117962 - isvavai.cz</a>

  • Result on the web

    <a href="https://doi.org/10.1021/acsomega.0c01434" target="_blank" >https://doi.org/10.1021/acsomega.0c01434</a>

  • DOI - Digital Object Identifier

    <a href="http://dx.doi.org/10.1021/acsomega.0c01434" target="_blank" >10.1021/acsomega.0c01434</a>

Alternative languages

  • Result language

    angličtina

  • Original language name

    Catalytic Mechanism of Processive GlfT2: Transition Path Sampling Investigation of Substrate Translocation

  • Original language description

    We applied the transition path sampling (TPS) method to study the translocation step of the catalytic mechanism of galactofuranosyl transferase 2 (GlfT2). Using TPS in the field of enzymatic reactions is still relatively rare, and we show its effectiveness on this enzymatic system. We decipher an unknown mechanism of the translocation step and, thus, provide a complete understanding of the catalytic mechanism of GlfT2 at the atomistic level. The GlfT2 enzyme is involved in the formation of the mycobacterial cell wall and transfers galactofuranose (Galf) from UDP-Galf onto a growing acceptor Galf chain. The biosynthesis of the galactan chain is accomplished in a processive manner, with the growing acceptor substrate remaining bound to GlfT2. The glycosidic bond formed by GlfT2 between the two Gall residues alternates between beta-(1-6) and beta-(1-5) linkages. The translocation of the growing galactan between individual additions of Galf residues is crucial for the function of GlfT2. Analysis of unbiased trajectory ensembles revealed that the translocation proceeds differently depending on the glycosidic linkage between the last two Galf residues. We also showed that the protonation state of the catalytic residue Asp372 significantly influences the translocation. Approximate transition state structures and potential energy reaction barriers of the translocation process were determined. The calculated potential reaction barriers in the range of 6-14 kcal/mol show that the translocation process is not the rate-limiting step in galactan biosynthesis.

  • Czech name

  • Czech description

Classification

  • Type

    J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database

  • CEP classification

  • OECD FORD branch

    10400 - Chemical sciences

Result continuities

  • Project

    Result was created during the realization of more than one project. More information in the Projects tab.

  • Continuities

    P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Others

  • Publication year

    2020

  • Confidentiality

    S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Data specific for result type

  • Name of the periodical

    ACS Omega

  • ISSN

    2470-1343

  • e-ISSN

  • Volume of the periodical

    5

  • Issue of the periodical within the volume

    34

  • Country of publishing house

    US - UNITED STATES

  • Number of pages

    11

  • Pages from-to

    21374-21384

  • UT code for WoS article

    000568645300006

  • EID of the result in the Scopus database

    2-s2.0-85091020953