Protonation Effect of Tyrosine in a Segment of the SRF Transcription Factor: A Combined Optical Spectroscopy, Molecular Dynamics, and Density Functional Theory Calculation Study

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216208%3A11320%2F13%3A10189617" target="_blank" >RIV/00216208:11320/13:10189617 - isvavai.cz</a>

Nalezeny alternativní kódy

RIV/61388963:_____/13:00421903

Výsledek na webu

<a href="http://pubs.acs.org/doi/pdf/10.1021/jp4099864" target="_blank" >http://pubs.acs.org/doi/pdf/10.1021/jp4099864</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1021/jp4099864" target="_blank" >10.1021/jp4099864</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Protonation Effect of Tyrosine in a Segment of the SRF Transcription Factor: A Combined Optical Spectroscopy, Molecular Dynamics, and Density Functional Theory Calculation Study

Popis výsledku v původním jazyce

The high sensitivity to pH of a short segment (an octamer) of serum response factor (SRF), an important member of the MAPS box family of transcription factors, was investigated by Raman scattering, infrared and circular dichroism spectroscopies. Molecular dynamics (MD) and density functional theory (DFT) calculations enabled interpretation of spectral changes in close detail. Although there was a negligible difference between spectra in acidic and neutral environments, the spectrum in basic pH was substantially different. The major changes were attributed to the deprotonation of tyrosine. The secondary structure of the SRF octamer fragment was estimated experimentally as well as predicted theoretically by MD. All techniques proved that it exists in a dynamical equilibrium among several conformations mostly close to beta turn, unordered conformations, and extended structure, in contrast to the stable secondary structure it possesses as a part of SRF. Generally, this approach represents

Název v anglickém jazyce

Protonation Effect of Tyrosine in a Segment of the SRF Transcription Factor: A Combined Optical Spectroscopy, Molecular Dynamics, and Density Functional Theory Calculation Study

Popis výsledku anglicky

The high sensitivity to pH of a short segment (an octamer) of serum response factor (SRF), an important member of the MAPS box family of transcription factors, was investigated by Raman scattering, infrared and circular dichroism spectroscopies. Molecular dynamics (MD) and density functional theory (DFT) calculations enabled interpretation of spectral changes in close detail. Although there was a negligible difference between spectra in acidic and neutral environments, the spectrum in basic pH was substantially different. The major changes were attributed to the deprotonation of tyrosine. The secondary structure of the SRF octamer fragment was estimated experimentally as well as predicted theoretically by MD. All techniques proved that it exists in a dynamical equilibrium among several conformations mostly close to beta turn, unordered conformations, and extended structure, in contrast to the stable secondary structure it possesses as a part of SRF. Generally, this approach represents

Druh

J_x - Nezařazeno - Článek v odborném periodiku (Jimp, Jsc a Jost)

CEP obor

BO - Biofyzika

OECD FORD obor

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Projekt

<a href="/cs/project/GA202%2F09%2F0193" target="_blank" >GA202/09/0193: Vznik a dynamika strukturních motivů nukleových kyselin podílejících se na regulaci genové exprese</a><br>

Návaznosti

S - Specificky vyzkum na vysokych skolach

Rok uplatnění

2013

Kód důvěrnosti údajů

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

Název periodika

Journal of Physical Chemistry B

ISSN

1520-6106

e-ISSN

—

Svazek periodika

117

Číslo periodika v rámci svazku

50

Stát vydavatele periodika

US - Spojené státy americké

Počet stran výsledku

10

Strana od-do

16086-16095

Kód UT WoS článku

000328920600017

EID výsledku v databázi Scopus

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