Limits on alpha-helix prediction with neural network models

Hayward, S. ORCID: and Collins, J. F. (1992) Limits on alpha-helix prediction with neural network models. Proteins: Structure, Function, and Bioinformatics, 14 (3). pp. 372-381. ISSN 0887-3585

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Using a backpropagation neural network model we have found a limit for secondary structure prediction from local sequence. By including only sequences from whole α-helix and non-α-helixstructures in our training and test sets—sequences spanning boundaries between these two structures were excluded—it was possible to investigate directly the relationship between sequence and structure for α-helix. A group of non-α-helix sequences, that was disrupting overall prediction success, was indistinguishable to the network from α-helix sequences. These sequences were found to occur at regions adjacent to the termini of α-helices with statistical significance, suggesting that potentially longer α-helices are disrupted by global constraints. Some of these regions spanned more than 20 residues. On these whole structure sequences, 10 residues in length, a comparatively high prediction success of 78% with a correlation coefficient of 0.52 was achieved. In addition, the structure of the input space, the distribution of β-sheet in this space, and the effect of segment length were also investigated.

Item Type: Article
Faculty \ School: Faculty of Science > School of Computing Sciences
UEA Research Groups: Faculty of Science > Research Groups > Computational Biology
Depositing User: EPrints Services
Date Deposited: 01 Oct 2010 13:41
Last Modified: 22 Apr 2023 23:58
DOI: 10.1002/prot.340140306

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