Research article
Prediction of protein motions from amino acid sequence and its application to protein-protein interaction
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* Corresponding author: Shuichi Hirose hirose-shuichi@aist.go.jp
1 Computational Biology Research Center (CBRC), National Institute of Advanced Industrial Science and Technology (AIST),2-42, Aomi, Koto-ku, Tokyo, 135-0064, Japan
2 Research Institute of IT Biology/Faculty of Science and Engineering, Waseda University,2-42, Aomi, Koto-ku, Tokyo, 135-0064, Japan
3 Department of Biotechnology and Life Science, Graduate School of Engineering, Tokyo University of Agriculture and Technology,12-24-16, Naka-machi, Koganei-shi, Tokyo, 184-8588, Japan
4 School of Social Sciences, Waseda University,1-6-1, Nishi-Waseda, Shinjuku-ku, Tokyo, 169-8050, Japan
5 Department of Physics, School of Science, Kitasato University,1-15-1, Kitasato, Sagamihara, 228-8555, Japan
6 PharmaDesign, Inc.,2-19-8, Hatchobori, Chuo-ku, Tokyo, 104-0032, Japan
BMC Structural Biology 2010, 10:20 doi:10.1186/1472-6807-10-20
Published: 13 July 2010Additional files
Additional file 1:
Figure S1. Examples of internal and external motion: T7 lysozyme.
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Additional file 2:
Figure S2. Change of the prediction accuracy according to the margin size.
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Additional file 3:
Table S1. The average of MAEs according to the secondary structure.
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Additional file 4:
Figure S3. Relation between the number of variables and prediction accuracy.
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Additional file 5:
Figure S4. Proportion of features ranked in the top 20.
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Additional file 6:
Figure S5. Prediction result of three published predictors for ection, Fab fragment, and erythropoietin.
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Additional file 7:
Table S2. List of prediction results for the large conformational change dataset.
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Additional file 8:
Figure S6. Distribution of internal motion and observed conformational change for 20 proteins.
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Additional file 9:
Figure S7. Influence of three parameters of random forest on the prediction error rate.
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Additional file 10:
Table S3. The average and standard deviation of normalized NMA score in each category.
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