Gene

The Internet

Web server

Magnetic field

Physics

Circular dichroism

World Wide Web

Antiparallel (mathematics)

Homology modeling

Enzyme

Chemistry

Biological system

In silico

Computer science

Protein structure

Genetics

Biochemistry

Bioinformatics

Quantum mechanics

Protein secondary structure

Protein Data Bank (RCSB PDB)

Computational biology

Upload

Crystallography

Biology

Nucleic Acids Research

Circular dichroism (CD) spectroscopy is widely used to characterize the secondary structure composition of proteins. To derive accurate and detailed structural information from the CD spectra, we have developed the Beta Structure Selection (BeStSel) method (PNAS, 112, E3095), which can handle the spectral diversity of β-structured proteins. The BeStSel webserver provides this method with useful accessories to the community with the main goal to analyze single or multiple protein CD spectra. Uniquely, BeStSel provides information on eight secondary structure components including parallel β-structure and antiparallel β-sheets with three different groups of twist. It overperforms any available method in accuracy and information content, moreover, it is capable of predicting the protein fold down to the topology/homology level of the CATH classification. A new module of the webserver helps to distinguish intrinsically disordered proteins by their CD spectrum. Secondary structure calculation for uploaded PDB files will help the experimental verification of protein MD and in silico modelling using CD spectroscopy. The server also calculates extinction coefficients from the primary sequence for CD users to determine the accurate protein concentrations which is a prerequisite for reliable secondary structure determination. The BeStSel server can be freely accessed at https://bestsel.elte.hu.

BeStSel: webserver for secondary structure and fold prediction for protein CD spectroscopy