Estimation of protein secondary structure from synchrotron radiation circular dichroism spectra

Procopiou, A. and Allinson, Nigel and Jones, G. R. and Clarke, D. T. (2004) Estimation of protein secondary structure from synchrotron radiation circular dichroism spectra. In: 26th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2004, 1-5 September 2004, San Francisco.

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Item Type:Conference or Workshop contribution (Paper)
Item Status:Live Archive

Abstract

A new approach to estimate the fraction of secondary structures fractions from synchrotron radiation circular dichroism (SRCD) spectra is presented. The protein SRCD spectra are first approximated using Radial Basis Function Networks (RBFN) and the resulting set is used to train a Self-Organising Map (SOM). Thus the data are arranged in a two-dimensional map in such a way that most similar proteins are close to each other and vice versa. Estimation of the parallel and antiparallel beta sheets is discussed. The number of spectra in the training set is twenty four proteins and the protein under examination is also included in the set Estimation results shows improvements compared with previous methods such as K2D and SOMCD.

Keywords:Computer networks, Conformal mapping, Radial basis function networks, Statistical methods, Synchrotron radiation, Circular dichroism, Secondary structure, Self-organizing maps, Proteins
Subjects:G Mathematical and Computer Sciences > G400 Computer Science
Divisions:College of Science > School of Computer Science
ID Code:8565
Deposited On:12 Apr 2013 11:39

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