Publication Details

CalFitter 2.0: Leveraging the power of singular value decomposition to analyse protein thermostability

KUNKA Antonín, LACKO Dávid, ŠTOURAČ Jan, DAMBORSKÝ Jiří, PROKOP Zbyněk and MAZURENKO Stanislav. CalFitter 2.0: Leveraging the power of singular value decomposition to analyse protein thermostability. Nucleic Acids Research, vol. 50, no. 1, 2022, pp. 145-151. ISSN 1362-4962. Available from: https://watermark.silverchair.com/gkac378.pdf?token=AQECAHi208BE49Ooan9kkhW_Ercy7Dm3ZL_9Cf3qfKAc485ysgAAAt8wggLbBgkqhkiG9w0BBwagggLMMIICyAIBADCCAsEGCSqGSIb3DQEHATAeBglghkgBZQMEAS4wEQQM6mnogQLGRDLO_t5jAgEQgIICkgBAjLYrvaDf6iP6XH99tWgNvN-saAJIyGEw-eFFniYTYL2
Czech title
CalFitter 2.0: Využití schopnosti rozkladu singulárních hodnot k analýze termostability proteinů
Type
journal article
Language
english
Authors
Kunka Antonín, Mgr., Ph.D. (LL)
Lacko Dávid, Ing. (FIT BUT)
Štourač Jan (LL)
Damborský Jiří, prof. Mgr., Dr. (LL)
Prokop Zbyněk, doc. RnDr., Ph.D. (LL)
Mazurenko Stanislav, Ph.D. (LL)
URL
Keywords

fluorescence, calorimetry, resolution, state

Abstract

The importance of the quantitative description of protein unfolding and aggregation for the rational design of stability or understanding the molecular basis of protein misfolding diseases is well established. Protein thermostability is typically assessed by calorimetric or spectroscopic techniques that monitor different complementary signals during unfolding. The CalFitter webserver has already proved integral to deriving invaluable energy parameters by global data analysis. Here, we introduce CalFitter 2.0, which newly incorporates singular value decomposition (SVD) of multi-wavelength spectral datasets into the global fitting pipeline. Processed time- or temperature-evolved SVD components can now be fitted together with other experimental data types. Moreover, deconvoluted basis spectra provide spectral fingerprints of relevant macrostates populated during unfolding, which greatly enriches the information gains of the CalFitter output. The SVD analysis is fully automated in a highly interactive module, providing access to the results to users without any prior knowledge of the underlying mathematics. Additionally, a novel data uploading wizard has been implemented to facilitate rapid and easy uploading of multiple datasets. Together, the newly introduced changes significantly improve the user experience, making this software a unique, robust, and interactive platform for the analysis of protein thermal denaturation data.

Published
2022
Pages
145-151
Journal
Nucleic Acids Research, vol. 50, no. 1, ISSN 1362-4962
Publisher
Oxford University Press
DOI
10.1093/nar/gkac378
UT WoS
000796682400001
EID Scopus
2-s2.0-85134376457
BibTeX 
@ARTICLE{FITPUB12939,
   author = "Anton\'{i}n Kunka and D\'{a}vid Lacko and Jan \v{S}toura\v{c} and Ji\v{r}\'{i} Damborsk\'{y} and Zbyn\v{e}k Prokop and Stanislav Mazurenko",
   title = "CalFitter 2.0: Leveraging the power of singular value decomposition to analyse protein thermostability",
   pages = "145--151",
   journal = "Nucleic Acids Research",
   volume = 50,
   number = 1,
   year = 2022,
   ISSN = "1362-4962",
   doi = "10.1093/nar/gkac378",
   language = "english",
   url = "https://www.fit.vut.cz/research/publication/12939"
}
Back to top