Seeing the invisible – Study of transiently formed protein
conformation found in domain 1.1 of bacterial transcription
factor

k 2022

Seeing the invisible – Study of transiently formed protein conformation found in domain 1.1 of bacterial transcription factor

TUŽINČIN, Dávid; Pavel KADEŘÁVEK; Petr PADRTA a Lukáš ŽÍDEK

Základní údaje

Originální název

Seeing the invisible – Study of transiently formed protein conformation found in domain 1.1 of bacterial transcription factor

Autoři

TUŽINČIN, Dávid (703 Slovensko, domácí); Pavel KADEŘÁVEK (203 Česká republika, garant); Petr PADRTA (203 Česká republika) a Lukáš ŽÍDEK (203 Česká republika)

Vydání

XVIII Discussions in Structural Molecular Biology and 5th User Meeting of CIISB (Czech Infrastructure for Integrative Structural Biology), 2022

Další údaje

Jazyk

angličtina

Typ výsledku

Prezentace na konferencích

Obor

10609 Biochemical research methods

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Kód RIV

RIV/00216224:14310/22:00126954

Organizační jednotka

Přírodovědecká fakulta

Klíčová slova anglicky

NMR; sigmaA; Bacillus subtilis; region 1.1; protein dynamics

Změněno: 13. 6. 2023 13:44, Mgr. Dávid Tužinčin

Anotace

V originále

Biomolecules undergo a variety of motions at various timescales. Motions at microsecond to millisecond timescales are often associated with transitions between ground states and higher energy states. Methods of structural biology allow detailed characterization of ground state structure and dynamics. However, the studies of higher energy state conformations are more difficult, because of their low occupancies and short lifetimes. Due to this fact, studies of excited states are often omitted. But nuclear magnetic resonance provides methods to investigate motions associated with these transitions and structures of excited states. In here, we investigate such conformational exchange, between well-defined ground state and transiently formed excited state which has been detected in domain 1.1 of primary sigma transcription factor from Bacillus subtillis. Sigma factor is essential for initiating the process of transcription, a fundamental cellular process. With the use of relaxation dispersion experiments we obtained structural information about orientations of bond vectors and secondary structure propensities within the excited state. Our results suggest that the excited state (populated only about 3% in the solution at 25 °C) has significantly lower propensity to form a stable secondary structure in the regions of helix I and helix III compared to the ground state.

Návaznosti

EF18_070/0009846, projekt VaV

Název: MSCAfellow2@MUNI

GJ18-04197Y, projekt VaV

Název: Charakterizace flexibilních oblastí RNA polymerázy Bacillus subtilis

Investor: Grantová agentura ČR, Characterization of dynamical regions in RNA polymerase from Bacillus subtilis

LM2018127, projekt VaV

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

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

MUNI/A/1467/2021, interní kód MU

Název: Struktura a dynamika biopolymerů

Investor: Masarykova univerzita, Struktura a dynamika biopolymerů

Citovat

TUŽINČIN, Dávid; Pavel KADEŘÁVEK; Petr PADRTA a Lukáš ŽÍDEK. Seeing the invisible – Study of transiently formed protein conformation found in domain 1.1 of bacterial transcription factor. In XVIII Discussions in Structural Molecular Biology and 5th User Meeting of CIISB (Czech Infrastructure for Integrative Structural Biology). 2022.

@proceedings{2225861,
   author = {Tužinčin, Dávid and Kadeřávek, Pavel and Padrta, Petr and Žídek, Lukáš},
   booktitle = {XVIII Discussions in Structural Molecular Biology and 5th User Meeting of CIISB (Czech Infrastructure for Integrative Structural Biology)},
   keywords = {NMR; sigmaA; Bacillus subtilis; region 1.1; protein dynamics},
   language = {eng},
   title = {Seeing the invisible – Study of transiently formed protein conformation found in domain 1.1 of bacterial transcription factor},
   url = {https://www.xray.cz/setkani/abst2022/505.htm},
   year = {2022}
}

TY  - CONF
ID  - 2225861
AU  - Tužinčin, Dávid - Kadeřávek, Pavel - Padrta, Petr - Žídek, Lukáš
PY  - 2022
TI  - Seeing the invisible – Study of transiently formed protein conformation found in domain 1.1 of bacterial transcription factor
KW  - NMR
KW  - sigmaA
KW  - Bacillus subtilis
KW  - region 1.1
KW  - protein dynamics
UR  - https://www.xray.cz/setkani/abst2022/505.htm
N2  - Biomolecules undergo a variety of motions at various timescales. Motions at microsecond to millisecond timescales are often associated with transitions between ground states and higher energy states. Methods of structural biology allow detailed characterization of ground state structure and dynamics. However, the studies of higher energy state conformations are more difficult, because of their low occupancies and short lifetimes. Due to this fact, studies of excited states are often omitted. But nuclear magnetic resonance provides methods to investigate motions associated with these transitions and structures of excited states. In here, we investigate such conformational exchange, between well-defined ground state and transiently formed excited state which has been detected in domain 1.1 of primary sigma transcription factor from Bacillus subtillis. Sigma factor is essential for initiating the process of transcription, a fundamental cellular process. With the use of relaxation dispersion experiments we obtained structural information about orientations of bond vectors and secondary structure propensities within the excited state. Our results suggest that the excited state (populated only about 3% in the solution at 25 °C) has significantly lower propensity to form a stable secondary structure in the regions of helix I and helix III compared to the ground state.
ER  -

TUŽINČIN, Dávid; Pavel KADEŘÁVEK; Petr PADRTA a Lukáš ŽÍDEK. Seeing the invisible – Study of transiently formed protein conformation found in domain 1.1 of bacterial transcription factor. In \textit{XVIII Discussions in Structural Molecular Biology and 5th User Meeting of CIISB (Czech Infrastructure for Integrative Structural Biology)}. 2022.

Přehled o publikaci