Spectral density mapping at multiple magnetic fields suitable
for C-13 NMR relaxation studies

J 2016

Spectral density mapping at multiple magnetic fields suitable for C-13 NMR relaxation studies

KADEŘÁVEK, Pavel, Vojtěch ZAPLETAL, Radovan FIALA, Pavel SRB, Petr PADRTA et. al.

Základní údaje

Originální název

Spectral density mapping at multiple magnetic fields suitable for C-13 NMR relaxation studies

Autoři

KADEŘÁVEK, Pavel (203 Česká republika, domácí), Vojtěch ZAPLETAL (203 Česká republika, domácí), Radovan FIALA (203 Česká republika, domácí), Pavel SRB (203 Česká republika, domácí), Petr PADRTA (203 Česká republika, domácí), Jana PAVLÍKOVÁ PŘECECHTĚLOVÁ (203 Česká republika, domácí), Mária ŠOLTÉSOVÁ (703 Slovensko), Jozef KOWALEWSKI (752 Švédsko), Göran WIDMALM (752 Švédsko), Josef CHMELÍK (203 Česká republika), Vladimír SKLENÁŘ (203 Česká republika, domácí) a Lukáš ŽÍDEK (203 Česká republika, garant, domácí)

Vydání

Journal of Magnetic Resonance, San Diego, Academic Press Inc. Elsevier Science, 2016, 1090-7807

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10600 1.6 Biological sciences

Stát vydavatele

Spojené státy

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 2.432

Kód RIV

RIV/00216224:14740/16:00090497

Organizační jednotka

Středoevropský technologický institut

DOI

http://dx.doi.org/10.1016/j.jmr.2016.02.016

UT WoS

000375510100004

Klíčová slova anglicky

Nuclear magnetic resonance; Relaxation; Spectral density function; Magnetic field; Nucleic acids; Carbohydrates

Štítky

rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 27. 4. 2017 13:36, Mgr. Eva Špillingová

Anotace

V originále

Standard spectral density mapping protocols, well suited for the analysis of N-15 relaxation rates, introduce significant systematic errors when applied to C-13 relaxation data, especially if the dynamics is dominated by motions with short correlation times (small molecules, dynamic residues of macromolecules). A possibility to improve the accuracy by employing cross-correlated relaxation rates and on measurements taken at several magnetic fields has been examined. A suite of protocols for analyzing such data has been developed and their performance tested. Applicability of the proposed protocols is documented in two case studies, spectral density mapping of a uniformly labeled RNA hairpin and of a selectively labeled disaccharide exhibiting highly anisotropic tumbling. Combination of auto- and cross-correlated relaxation data acquired at three magnetic fields was applied in the former case in order to separate effects of fast motions and conformational or chemical exchange. An approach using auto-correlated relaxation rates acquired at five magnetic fields, applicable to anisotropically moving molecules, was used in the latter case. The results were compared with a more advanced analysis of data obtained by interpolation of auto-correlated relaxation rates measured at seven magnetic fields, and with the spectral density mapping of cross-correlated relaxation rates. The results showed that sufficiently accurate values of auto- and cross-correlated spectral density functions at zero and C-13 frequencies can be obtained from data acquired at three magnetic fields for uniformly C-13-labeled molecules with a moderate anisotropy of the rotational diffusion tensor. Analysis of auto-correlated relaxation rates at five magnetic fields represents an alternative for molecules undergoing highly anisotropic motions. (C) 2016 Elsevier Inc. All rights reserved.

Návaznosti

ED1.1.00/02.0068, projekt VaV

Název: CEITEC - central european institute of technology

EE2.3.20.0042, projekt VaV

Název: Internacionalizace programu Strukturní biologie s důrazem na rozvoj nových směrů výzkumu

EE2.3.30.0009, projekt VaV

Název: Zaměstnáním čerstvých absolventů doktorského studia k vědecké excelenci

Citovat

KADEŘÁVEK, Pavel, Vojtěch ZAPLETAL, Radovan FIALA, Pavel SRB, Petr PADRTA, Jana PAVLÍKOVÁ PŘECECHTĚLOVÁ, Mária ŠOLTÉSOVÁ, Jozef KOWALEWSKI, Göran WIDMALM, Josef CHMELÍK, Vladimír SKLENÁŘ a Lukáš ŽÍDEK. Spectral density mapping at multiple magnetic fields suitable for C-13 NMR relaxation studies. Journal of Magnetic Resonance. San Diego: Academic Press Inc. Elsevier Science, 2016, roč. 266, May, s. 23-40. ISSN 1090-7807. Dostupné z: https://dx.doi.org/10.1016/j.jmr.2016.02.016.

@article{1350870,
   author = {Kadeřávek, Pavel and Zapletal, Vojtěch and Fiala, Radovan and Srb, Pavel and Padrta, Petr and Pavlíková Přecechtělová, Jana and Šoltésová, Mária and Kowalewski, Jozef and Widmalm, Göran and Chmelík, Josef and Sklenář, Vladimír and Žídek, Lukáš},
   article_location = {San Diego},
   article_number = {May},
   doi = {http://dx.doi.org/10.1016/j.jmr.2016.02.016},
   keywords = {Nuclear magnetic resonance; Relaxation; Spectral density function; Magnetic field; Nucleic acids; Carbohydrates},
   language = {eng},
   issn = {1090-7807},
   journal = {Journal of Magnetic Resonance},
   title = {Spectral density mapping at multiple magnetic fields suitable for C-13 NMR relaxation studies},
   url = {http://www.sciencedirect.com/science/article/pii/S1090780716001191},
   volume = {266},
   year = {2016}
}

TY  - JOUR
ID  - 1350870
AU  - Kadeřávek, Pavel - Zapletal, Vojtěch - Fiala, Radovan - Srb, Pavel - Padrta, Petr - Pavlíková Přecechtělová, Jana - Šoltésová, Mária - Kowalewski, Jozef - Widmalm, Göran - Chmelík, Josef - Sklenář, Vladimír - Žídek, Lukáš
PY  - 2016
TI  - Spectral density mapping at multiple magnetic fields suitable for C-13 NMR relaxation studies
JF  - Journal of Magnetic Resonance
VL  - 266
IS  - May
SP  - 23-40
EP  - 23-40
PB  - Academic Press Inc. Elsevier Science
SN  - 10907807
KW  - Nuclear magnetic resonance
KW  - Relaxation
KW  - Spectral density function
KW  - Magnetic field
KW  - Nucleic acids
KW  - Carbohydrates
UR  - http://www.sciencedirect.com/science/article/pii/S1090780716001191
L2  - http://www.sciencedirect.com/science/article/pii/S1090780716001191
N2  - Standard spectral density mapping protocols, well suited for the analysis of N-15 relaxation rates, introduce significant systematic errors when applied to C-13 relaxation data, especially if the dynamics is dominated by motions with short correlation times (small molecules, dynamic residues of macromolecules). A possibility to improve the accuracy by employing cross-correlated relaxation rates and on measurements taken at several magnetic fields has been examined. A suite of protocols for analyzing such data has been developed and their performance tested. Applicability of the proposed protocols is documented in two case studies, spectral density mapping of a uniformly labeled RNA hairpin and of a selectively labeled disaccharide exhibiting highly anisotropic tumbling. Combination of auto- and cross-correlated relaxation data acquired at three magnetic fields was applied in the former case in order to separate effects of fast motions and conformational or chemical exchange. An approach using auto-correlated relaxation rates acquired at five magnetic fields, applicable to anisotropically moving molecules, was used in the latter case. The results were compared with a more advanced analysis of data obtained by interpolation of auto-correlated relaxation rates measured at seven magnetic fields, and with the spectral density mapping of cross-correlated relaxation rates. The results showed that sufficiently accurate values of auto- and cross-correlated spectral density functions at zero and C-13 frequencies can be obtained from data acquired at three magnetic fields for uniformly C-13-labeled molecules with a moderate anisotropy of the rotational diffusion tensor. Analysis of auto-correlated relaxation rates at five magnetic fields represents an alternative for molecules undergoing highly anisotropic motions. (C) 2016 Elsevier Inc. All rights reserved.
ER  -

KADEŘÁVEK, Pavel, Vojtěch ZAPLETAL, Radovan FIALA, Pavel SRB, Petr PADRTA, Jana PAVLÍKOVÁ PŘECECHTĚLOVÁ, Mária ŠOLTÉSOVÁ, Jozef KOWALEWSKI, Göran WIDMALM, Josef CHMELÍK, Vladimír SKLENÁŘ a Lukáš ŽÍDEK. Spectral density mapping at multiple magnetic fields suitable for C-13 NMR relaxation studies. \textit{Journal of Magnetic Resonance}. San Diego: Academic Press Inc. Elsevier Science, 2016, roč.~266, May, s.~23-40. ISSN~1090-7807. Dostupné z: https://dx.doi.org/10.1016/j.jmr.2016.02.016.

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