Promoter recognition specificity of Corynebacterium glutamicum stress response sigma factors σD and σH deciphered using computer modeling and point mutagenesis

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F61388971%3A_____%2F25%3A00602636" target="_blank" >RIV/61388971:_____/25:00602636 - isvavai.cz</a>

Nalezeny alternativní kódy

RIV/00216208:11320/25:10510830

Výsledek na webu

<a href="https://link.springer.com/article/10.1007/s10822-024-00577-x" target="_blank" >https://link.springer.com/article/10.1007/s10822-024-00577-x</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1007/s10822-024-00577-x" target="_blank" >10.1007/s10822-024-00577-x</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Promoter recognition specificity of Corynebacterium glutamicum stress response sigma factors σD and σH deciphered using computer modeling and point mutagenesis

Popis výsledku v původním jazyce

This study aimed to reveal interactions of the stress response sigma subunits (factors) sigma D and sigma H of RNA polymerase and promoters in Gram-positive bacterium Corynebacterium glutamicum by combining wet-lab obtained data and in silico modeling. Computer modeling-guided point mutagenesis of C. glutamicum sigma H subunit led to the creation of a panel of sigma H variants. Their ability to initiate transcription from naturally occurring hybrid sigma D/sigma H-dependent promoter Pcg0441 and two control canonical promoters (sigma D-dependent PrsdA and sigma H-dependent PuvrD3) was measured and interpreted using molecular dynamics simulations of homology models of all complexes. The results led us to design the artificial hybrid promoter PD35H10 combining the10 element of the PuvrD3 promoter and the35 element of the PrsdA promoter. This artificial hybrid promoter PD35-rsdAH10-uvrD3 showed almost optimal properties needed for the bio-orthogonal transcription (not interfering with the native biological processes).

Název v anglickém jazyce

Promoter recognition specificity of Corynebacterium glutamicum stress response sigma factors σD and σH deciphered using computer modeling and point mutagenesis

Popis výsledku anglicky

This study aimed to reveal interactions of the stress response sigma subunits (factors) sigma D and sigma H of RNA polymerase and promoters in Gram-positive bacterium Corynebacterium glutamicum by combining wet-lab obtained data and in silico modeling. Computer modeling-guided point mutagenesis of C. glutamicum sigma H subunit led to the creation of a panel of sigma H variants. Their ability to initiate transcription from naturally occurring hybrid sigma D/sigma H-dependent promoter Pcg0441 and two control canonical promoters (sigma D-dependent PrsdA and sigma H-dependent PuvrD3) was measured and interpreted using molecular dynamics simulations of homology models of all complexes. The results led us to design the artificial hybrid promoter PD35H10 combining the10 element of the PuvrD3 promoter and the35 element of the PrsdA promoter. This artificial hybrid promoter PD35-rsdAH10-uvrD3 showed almost optimal properties needed for the bio-orthogonal transcription (not interfering with the native biological processes).

Druh

J_imp - Článek v periodiku v databázi Web of Science

CEP obor

—

OECD FORD obor

10606 - Microbiology

Projekt

—

Návaznosti

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Rok uplatnění

2025

Kód důvěrnosti údajů

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

Název periodika

Journal of Computer-Aided Molecular Design

ISSN

0920-654X

e-ISSN

1573-4951

Svazek periodika

39

Číslo periodika v rámci svazku

1

Stát vydavatele periodika

NL - Nizozemsko

Počet stran výsledku

16

Strana od-do

1

Kód UT WoS článku

001362550200001

EID výsledku v databázi Scopus

2-s2.0-85210099230