BeStSel: a web server for accurate protein secondary structure prediction and fold recognition from the circular dichroism spectra
By András Micsonai, Frank Wien, Éva Bulyáki, J. Kun, Éva Moussong, Young-Ho Lee, Y. Goto, M. Réfrégiers, J. Kardos. Nucleic Acids Res., 2018
985 citations recorded by the source corpus.
Abstract Circular dichroism (CD) spectroscopy is a widely used method to study the protein secondary structure. However, for decades, the general opinion was that the correct estimation of β-sheet content is challenging because of the large spectral and structural diversity of β-sheets. Recently, we showed that the orientation and twisting of β-sheets account for the observed spectral diversity, and developed a new method to estimate accurately the secondary structure (PNAS, 112, E3095). BeStSel web server provides the Beta Structure Selection method to analyze the CD spectra recorded by conventional or synchrotron radiation CD equipment. Both normalized and measured data can be uploaded to the server either as a single spectrum or series of spectra. The originality of BeStSel is that it carries out a detailed secondary structure analysis providing information on eight secondary structure components including parallel-β structure and antiparallel β-sheets with three different groups of twist. Based on these, it predicts the protein fold down to the topology/homology level of the CATH protein fold classification. The server also provides a module to analyze the structures deposited in the PDB for BeStSel secondary structure contents in relation to Dictionary of Secondary Structure of Proteins data. The BeStSel server is freely accessible at http://bestsel.elte.hu.
Subfields: Materials Chemistry, Molecular Biology
View Paper: https://www.semanticscholar.org/paper/c74b2b7631f71b6ea84b7e2c457295aef034f5cb
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Citations in the corpus
- BeStSel: webserver for secondary structure and fold prediction for protein CD spectroscopy (2022, neutral): “After the first release in 2015 (4), the next larger update of BeStSel was introduced in 2018 when fold prediction was improved on the basis of the CATH 4.2 and the WKNN search engine was built-in (10).”
- DichroWeb, a website for calculating protein secondary structure from circular dichroism spectroscopic data (2021, background): “In some cases, their spectral profiles are similar to those generated by highly twisted β -sheets 16 and hence analyses using existing datasets tend to assign significant amounts of β -sheet structure to spectra of intrinsically-disordered proteins or proteins with intrinsically-disordered regions.”