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Krempl, Christina ; Sprangers, Remco

Assessing the applicability of ¹⁹F labeled tryptophan residues to quantify protein dynamics

Krempl, Christina and Sprangers, Remco (2023) Assessing the applicability of ¹⁹F labeled tryptophan residues to quantify protein dynamics. Journal of Biomolecular NMR 77, pp. 55-67.

Date of publication of this fulltext: 17 Jan 2023 05:30
Article
DOI to cite this document: 10.5283/epub.53540


Abstract

Nuclear magnetic resonance (NMR) spectroscopy is uniquely suited to study the dynamics of biomolecules in solution. Most NMR studies exploit the spins of proton, carbon and nitrogen isotopes, as these atoms are highly abundant in proteins and nucleic acids. As an alternative and complementary approach, fluorine atoms can be introduced into biomolecules at specific sites of interest. These labels ...

Nuclear magnetic resonance (NMR) spectroscopy is uniquely suited to study the dynamics of biomolecules in solution. Most NMR studies exploit the spins of proton, carbon and nitrogen isotopes, as these atoms are highly abundant in proteins and nucleic acids. As an alternative and complementary approach, fluorine atoms can be introduced into biomolecules at specific sites of interest. These labels can then be used as sensitive probes for biomolecular structure, dynamics or interactions. Here, we address if the replacement of tryptophan with 5-fluorotryptophan residues has an effect on the overall dynamics of proteins and if the introduced fluorine probe is able to accurately report on global exchange processes. For the four different model proteins (KIX, Dcp1, Dcp2 and DcpS) that we examined, we established that N-15 CPMG relaxation dispersion or EXSY profiles are not affected by the 5-fluorotryptophan, indicating that this replacement of a proton with a fluorine has no effect on the protein motions. However, we found that the motions that the 5-fluorotryptophan reports on can be significantly faster than the backbone motions. This implies that care needs to be taken when interpreting fluorine relaxation data in terms of global protein motions. In summary, our results underscore the great potential of fluorine NMR methods, but also highlight potential pitfalls that need to be considered.



Involved Institutions


Details

Item typeArticle
Journal or Publication TitleJournal of Biomolecular NMR
Publisher:SPRINGER
Open Access Type:DEAL (Springer)
Place of Publication:DORDRECHT
Volume:77
Page Range:pp. 55-67
Date14 January 2023
InstitutionsBiology, Preclinical Medicine > Institut für Biophysik und physikalische Biochemie > Prof. Dr. Remco Sprangers
Identification Number
ValueType
10.1007/s10858-022-00411-2DOI
KeywordsRNA DECAPPING ENZYME; NMR-SPECTROSCOPY; KIX DOMAIN; DCP2; INSIGHTS; QUANTIFICATION; RECOGNITION; EQUILIBRIA; EXCHANGE; ENTROPY; Fluorine NMR; Protein dynamics; CPMG relaxation dispersion; Conformational exchange; KIX domain; Dcp1; Dcp2; DcpS; mRNA decapping
Dewey Decimal Classification500 Science > 530 Physics
500 Science > 570 Life sciences
StatusPublished
RefereedYes, this version has been refereed
Created at the University of RegensburgYes
URN of the UB Regensburgurn:nbn:de:bvb:355-epub-535402
Item ID53540

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