ArticleRSC advances2021
Circular dichroism for secondary structure determination of proteins with unfolded domains using a self-organising map algorithm SOMSpec.
Article in RSC advances, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Microwave synthesis of ultrasmall gold nanoparticles, their γ-globulin interaction and subsequent effects in hepatocellular carcinoma cells.BMC chemistry · 2026Article
- Analysing the structure of antibodies using circular dichroism with an antibody augmented reference set and the algorithm SELCON.European biophysics journal : EBJ · 2026Article
- Key charged residues influence the amyloidogenic propensity of the helix-1 region of serum amyloid A.Biochimica et biophysica acta. General subjects · 2024Article
- An Improved Diabatization Scheme for Computing the Electronic Circular Dichroism of Proteins.The journal of physical chemistry. B · 2024Article
- Incorporating a β-hairpin sequence motif to increase intracellular stability of a peptide-based PROTAC.Biochemical engineering journal · 2023Article
- SOMSpec as a General Purpose Validated Self-Organising Map Tool for Rapid Protein Secondary Structure Prediction From Infrared Absorbance Data.Frontiers in chemistry · 2021Article
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Authors and funding
3 authors.
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Abstract
Many proteins and peptides are increasingly being recognised to contain unfolded domains or populations that are key to their function, whether it is in ligand binding or material assembly. We report an approach to determine the secondary structure for proteins with suspected significant unfolded domains or populations using our neural network approach SOMSpec. We proceed by derandomizing spectra by removing fractions of random coil (RC) spectra prior to secondary structure fitting and then regenerating α-helical and β-sheet contents for the experimental proteins. Application to bovine serum albumin spectra as a function of temperature proved to be straightforward, whereas lysozyme and insulin have hidden challenges. The importance of being able to interrogate the SOMSpec output to understand the best matching units used in the predictions is illustrated with lysozyme and insulin whose partially melted proteins proved to have significant β
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