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An algorithm for protein secondary structure prediction based on class prediction
Abstract
An algorithm has been developed to improve the success rate in the prediction of the secondary structure of proteins by taking into account the predicted class of the proteins. This method has been called the 'double prediction method' and consists of a first prediction of the secondary structure from a new algorithm which uses parameters of the type described by Chou and Fasman, and the prediction of the class of the proteins from their amino acid composition. These two independent predictions allow one to optimize the parameters calculated over the secondary structure database to provide the final prediction of secondary structure. This method has been tested on 59 proteins in the database (i.e. 10,322 residues) and yields 72% success in class prediction, 61.3% of residues correctly predicted for three states (helix, sheet and coil) and a good agreement between observed and predicted contents in secondary structure.
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Citations
Cited by
NPS@: Network Protein Sequence Analysis
Combet, C., Blanchet, C., Geourjon, C., & Deléage, G. (2000) · Trends in Biochemical Sciences · doi:10.1016/s0968-0004(99)01540-6 · Cited by 1,757
Self-citationCombining evolutionary information and neural networks to predict protein secondary structure
Rost, B., & Sander, C. (1994) · Proteins: Structure, Function, and Bioinformatics · doi:10.1002/prot.340190108 · Cited by 1,452
Improvements in protein secondary structure prediction by an enhanced neural network
Kneller, D. G., Cohen, F. E., & Langridge, R. (1990) · Journal of Molecular Biology · doi:10.1016/0022-2836(90)90154-e · Cited by 698
Bishop, N., & Woodman, P. (2001) · Journal of Biological Chemistry · doi:10.1074/jbc.m009863200 · Cited by 187
SIRT3 substrate specificity determined by peptide arrays and machine learning
Smith, B. C., Settles, B., Hallows, W. C., Craven, M. W., & Denu, J. M. (2011) · ACS Chemical Biology · doi:10.1021/cb100218d · Cited by 80
Metadata
- Authors
- Deléage, G., & Roux, B.
- Venue
- "Protein Engineering, Design and Selection"
- Publisher
- Oxford University Press (OUP)
- Published
- 1987
- Volume
- 1
- Issue
- 4
- Pages
- 289-294
- ISSN
- 0269-2139 (ISSN-L)
- 1741-0126
- 1741-0134
- OpenAlex
- W2075651068
- Cited by
- 351
- References
- 0
- FWCI
- 1.19
- Type
- journal article
- Language
- en
- Open access
- closed
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- Deléage, G., & Roux, B. (1987). An algorithm for protein secondary structure prediction based on class prediction. "Protein Engineering, Design and Selection". https://doi.org/10.1093/protein/1.4.289
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
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