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(13)C-detected NMR experiments for automatic resonance assignment of IDPs and multiple-fixing SMFT processing

Intrinsically disordered proteins (IDPs) have recently attracted much interest, due to their role in many biological processes, including signaling and regulation mechanisms. High-dimensional (13)C direct-detected NMR experiments have proven exceptionally useful in case of IDPs, providing spectra wi...

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Autores principales: Dziekański, Paweł, Grudziąż, Katarzyna, Jarvoll, Patrik, Koźmiński, Wiktor, Zawadzka-Kazimierczuk, Anna
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Netherlands 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4451475/
https://www.ncbi.nlm.nih.gov/pubmed/25902761
http://dx.doi.org/10.1007/s10858-015-9932-9
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author Dziekański, Paweł
Grudziąż, Katarzyna
Jarvoll, Patrik
Koźmiński, Wiktor
Zawadzka-Kazimierczuk, Anna
author_facet Dziekański, Paweł
Grudziąż, Katarzyna
Jarvoll, Patrik
Koźmiński, Wiktor
Zawadzka-Kazimierczuk, Anna
author_sort Dziekański, Paweł
collection PubMed
description Intrinsically disordered proteins (IDPs) have recently attracted much interest, due to their role in many biological processes, including signaling and regulation mechanisms. High-dimensional (13)C direct-detected NMR experiments have proven exceptionally useful in case of IDPs, providing spectra with superior peak dispersion. Here, two such novel experiments recorded with non-uniform sampling are introduced, these are 5D HabCabCO(CA)NCO and 5D HNCO(CA)NCO. Together with the 4D (HACA)CON(CA)NCO, an extension of the previously published 3D experiments (Pantoja-Uceda and Santoro in J Biomol NMR 59:43–50, 2014. doi:10.1007/s10858-014-9827-1), they form a set allowing for complete and reliable resonance assignment of difficult IDPs. The processing is performed with sparse multidimensional Fourier transform based on the concept of restricting (fixing) some of spectral dimensions to a priori known resonance frequencies. In our study, a multiple-fixing method was developed, that allows easy access to spectral data. The experiments were tested on a resolution-demanding alpha-synuclein sample. Due to superior peak dispersion in high-dimensional spectrum and availability of the sequential connectivities between four consecutive residues, the overwhelming majority of resonances could be assigned automatically using the TSAR program. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s10858-015-9932-9) contains supplementary material, which is available to authorized users.
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spelling pubmed-44514752015-06-09 (13)C-detected NMR experiments for automatic resonance assignment of IDPs and multiple-fixing SMFT processing Dziekański, Paweł Grudziąż, Katarzyna Jarvoll, Patrik Koźmiński, Wiktor Zawadzka-Kazimierczuk, Anna J Biomol NMR Article Intrinsically disordered proteins (IDPs) have recently attracted much interest, due to their role in many biological processes, including signaling and regulation mechanisms. High-dimensional (13)C direct-detected NMR experiments have proven exceptionally useful in case of IDPs, providing spectra with superior peak dispersion. Here, two such novel experiments recorded with non-uniform sampling are introduced, these are 5D HabCabCO(CA)NCO and 5D HNCO(CA)NCO. Together with the 4D (HACA)CON(CA)NCO, an extension of the previously published 3D experiments (Pantoja-Uceda and Santoro in J Biomol NMR 59:43–50, 2014. doi:10.1007/s10858-014-9827-1), they form a set allowing for complete and reliable resonance assignment of difficult IDPs. The processing is performed with sparse multidimensional Fourier transform based on the concept of restricting (fixing) some of spectral dimensions to a priori known resonance frequencies. In our study, a multiple-fixing method was developed, that allows easy access to spectral data. The experiments were tested on a resolution-demanding alpha-synuclein sample. Due to superior peak dispersion in high-dimensional spectrum and availability of the sequential connectivities between four consecutive residues, the overwhelming majority of resonances could be assigned automatically using the TSAR program. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s10858-015-9932-9) contains supplementary material, which is available to authorized users. Springer Netherlands 2015-04-23 2015 /pmc/articles/PMC4451475/ /pubmed/25902761 http://dx.doi.org/10.1007/s10858-015-9932-9 Text en © The Author(s) 2015 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.
spellingShingle Article
Dziekański, Paweł
Grudziąż, Katarzyna
Jarvoll, Patrik
Koźmiński, Wiktor
Zawadzka-Kazimierczuk, Anna
(13)C-detected NMR experiments for automatic resonance assignment of IDPs and multiple-fixing SMFT processing
title (13)C-detected NMR experiments for automatic resonance assignment of IDPs and multiple-fixing SMFT processing
title_full (13)C-detected NMR experiments for automatic resonance assignment of IDPs and multiple-fixing SMFT processing
title_fullStr (13)C-detected NMR experiments for automatic resonance assignment of IDPs and multiple-fixing SMFT processing
title_full_unstemmed (13)C-detected NMR experiments for automatic resonance assignment of IDPs and multiple-fixing SMFT processing
title_short (13)C-detected NMR experiments for automatic resonance assignment of IDPs and multiple-fixing SMFT processing
title_sort (13)c-detected nmr experiments for automatic resonance assignment of idps and multiple-fixing smft processing
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4451475/
https://www.ncbi.nlm.nih.gov/pubmed/25902761
http://dx.doi.org/10.1007/s10858-015-9932-9
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