Mycobacterial HelD is a nucleic acids-clearing factor for RNA
polymerase

J 2020

Mycobacterial HelD is a nucleic acids-clearing factor for RNA polymerase

KOUBA, T., T. KOVAL, P. SUDZINOVA, J. POSPISIL, B. BREZOVSKA et. al.

Základní údaje

Originální název

Mycobacterial HelD is a nucleic acids-clearing factor for RNA polymerase

Autoři

KOUBA, T., T. KOVAL, P. SUDZINOVA, J. POSPISIL, B. BREZOVSKA, J. HNILICOVA, H. SANDEROVA, M. JANOUSKOVA, M. SIKOVA, P. HALADA, M. SYKORA, I. BARVIK, Jiří NOVÁČEK (203 Česká republika, garant, domácí), M. TRUNDOVA, J. DUSKOVA, T. SKALOVA, U. CHON, K.S. MURAKAMI, J. DOHNALEK a L. KRASNY

Vydání

Nature Communications, London, Nature Publishing Group, 2020, 2041-1723

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10608 Biochemistry and molecular biology

Stát vydavatele

Německo

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 14.919

Kód RIV

RIV/00216224:14740/20:00118335

Organizační jednotka

Středoevropský technologický institut

DOI

http://dx.doi.org/10.1038/s41467-020-20158-4

UT WoS

000608512400003

Klíčová slova anglicky

ESCHERICHIA-COLI; STRUCTURAL BASIS; CRYO-EM; BACTERIAL; DNA; SOFTWARE; REFINEMENT; ELONGATION; INITIATION; TOOLS

Štítky

CF CRYO, rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 17. 10. 2024 17:35, Ing. Martina Blahová

Anotace

V originále

RNA synthesis is central to life, and RNA polymerase (RNAP) depends on accessory factors for recovery from stalled states and adaptation to environmental changes. Here, we investigated the mechanism by which a helicase-like factor HelD recycles RNAP. We report a cryo-EM structure of a complex between the Mycobacterium smegmatis RNAP and HelD. The crescent-shaped HelD simultaneously penetrates deep into two RNAP channels that are responsible for nucleic acids binding and substrate delivery to the active site, thereby locking RNAP in an inactive state. We show that HelD prevents non-specific interactions between RNAP and DNA and dissociates stalled transcription elongation complexes. The liberated RNAP can either stay dormant, sequestered by HelD, or upon HelD release, restart transcription. Our results provide insights into the architecture and regulation of the highly medically-relevant mycobacterial transcription machinery and define HelD as a clearing factor that releases RNAP from nonfunctional complexes with nucleic acids. The bacterial helicase-like transcription factor HelD associates with the RNA polymerase (RNAP) and recycles stalled transcription complexes. Here, the authors present the cryo-EM structures of three Mycobacterium smegmatis HelD bound RNAP complexes and further show that HelD can prevent the binding of the RNAP core to non-specific DNA and also actively removes RNAP from stalled elongation complexes.

Návaznosti

LM2015043, projekt VaV

Název: Česká infrastruktura pro integrativní strukturní biologii (Akronym: CIISB)

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, Czech Infrastructure for Integrative Structural Biology

90043, velká výzkumná infrastruktura

Název: CIISB

Citovat

KOUBA, T., T. KOVAL, P. SUDZINOVA, J. POSPISIL, B. BREZOVSKA, J. HNILICOVA, H. SANDEROVA, M. JANOUSKOVA, M. SIKOVA, P. HALADA, M. SYKORA, I. BARVIK, Jiří NOVÁČEK, M. TRUNDOVA, J. DUSKOVA, T. SKALOVA, U. CHON, K.S. MURAKAMI, J. DOHNALEK a L. KRASNY. Mycobacterial HelD is a nucleic acids-clearing factor for RNA polymerase. Nature Communications. London: Nature Publishing Group, 2020, roč. 11, č. 1, s. 6419-6431. ISSN 2041-1723. Dostupné z: https://dx.doi.org/10.1038/s41467-020-20158-4.

@article{1749818,
   author = {Kouba, T. and Koval, T. and Sudzinova, P. and Pospisil, J. and Brezovska, B. and Hnilicova, J. and Sanderova, H. and Janouskova, M. and Sikova, M. and Halada, P. and Sykora, M. and Barvik, I. and Nováček, Jiří and Trundova, M. and Duskova, J. and Skalova, T. and Chon, U. and Murakami, K.S. and Dohnalek, J. and Krasny, L.},
   article_location = {London},
   article_number = {1},
   doi = {http://dx.doi.org/10.1038/s41467-020-20158-4},
   keywords = {ESCHERICHIA-COLI; STRUCTURAL BASIS; CRYO-EM; BACTERIAL; DNA; SOFTWARE; REFINEMENT; ELONGATION; INITIATION; TOOLS},
   language = {eng},
   issn = {2041-1723},
   journal = {Nature Communications},
   title = {Mycobacterial HelD is a nucleic acids-clearing factor for RNA polymerase},
   url = {https://www.nature.com/articles/s41467-020-20158-4},
   volume = {11},
   year = {2020}
}

TY  - JOUR
ID  - 1749818
AU  - Kouba, T. - Koval, T. - Sudzinova, P. - Pospisil, J. - Brezovska, B. - Hnilicova, J. - Sanderova, H. - Janouskova, M. - Sikova, M. - Halada, P. - Sykora, M. - Barvik, I. - Nováček, Jiří - Trundova, M. - Duskova, J. - Skalova, T. - Chon, U. - Murakami, K.S. - Dohnalek, J. - Krasny, L.
PY  - 2020
TI  - Mycobacterial HelD is a nucleic acids-clearing factor for RNA polymerase
JF  - Nature Communications
VL  - 11
IS  - 1
SP  - 6419
EP  - 6419
PB  - Nature Publishing Group
SN  - 20411723
KW  - ESCHERICHIA-COLI
KW  - STRUCTURAL BASIS
KW  - CRYO-EM
KW  - BACTERIAL
KW  - DNA
KW  - SOFTWARE
KW  - REFINEMENT
KW  - ELONGATION
KW  - INITIATION
KW  - TOOLS
UR  - https://www.nature.com/articles/s41467-020-20158-4
N2  - RNA synthesis is central to life, and RNA polymerase (RNAP) depends on accessory factors for recovery from stalled states and adaptation to environmental changes. Here, we investigated the mechanism by which a helicase-like factor HelD recycles RNAP. We report a cryo-EM structure of a complex between the Mycobacterium smegmatis RNAP and HelD. The crescent-shaped HelD simultaneously penetrates deep into two RNAP channels that are responsible for nucleic acids binding and substrate delivery to the active site, thereby locking RNAP in an inactive state. We show that HelD prevents non-specific interactions between RNAP and DNA and dissociates stalled transcription elongation complexes. The liberated RNAP can either stay dormant, sequestered by HelD, or upon HelD release, restart transcription. Our results provide insights into the architecture and regulation of the highly medically-relevant mycobacterial transcription machinery and define HelD as a clearing factor that releases RNAP from nonfunctional complexes with nucleic acids. The bacterial helicase-like transcription factor HelD associates with the RNA polymerase (RNAP) and recycles stalled transcription complexes. Here, the authors present the cryo-EM structures of three Mycobacterium smegmatis HelD bound RNAP complexes and further show that HelD can prevent the binding of the RNAP core to non-specific DNA and also actively removes RNAP from stalled elongation complexes.
ER  -

KOUBA, T., T. KOVAL, P. SUDZINOVA, J. POSPISIL, B. BREZOVSKA, J. HNILICOVA, H. SANDEROVA, M. JANOUSKOVA, M. SIKOVA, P. HALADA, M. SYKORA, I. BARVIK, Jiří NOVÁČEK, M. TRUNDOVA, J. DUSKOVA, T. SKALOVA, U. CHON, K.S. MURAKAMI, J. DOHNALEK a L. KRASNY. Mycobacterial HelD is a nucleic acids-clearing factor for RNA polymerase. \textit{Nature Communications}. London: Nature Publishing Group, 2020, roč.~11, č.~1, s.~6419-6431. ISSN~2041-1723. Dostupné z: https://dx.doi.org/10.1038/s41467-020-20158-4.

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