Chaos game representation of protein structures |
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| Institution: | 1. Institute of Biomedical and Pharmaceutical Sciences, Guangdong University of Technology, Guangzhou, Guangdong 510006, China;2. Faculty of Science, Ehime University, 2-5 Bunkyo-cho, Matsuyama City 790-0825, Japan;1. Department of Biological Sciences, Sungkyunwan University, Suwon, Republic of Korea;2. Department of Chemistry, Sungkyunwan University, Suwon, Republic of Korea;1. Georgetown University School of Medicine, Washington, District of Columbia;2. Department of Dermatology, Georgetown University–Washington Hospital Center, Washington, District of Columbia;3. Division of Dermatology, Children''s National Health System, Washington, District of Columbia;4. Department of Dermatology, George Washington University School of Medicine and Health Sciences, Washington, District of Columbia;1. School of Computer Science and Shanghai Key Lab of Intelligent Information Processing, Fudan University, China;2. Center for Computational System Biology, ISTBI, Fudan University, Shanghai 200433, China;3. School of Computing and Mathematics, Charles Sturt University, Albury, NSW 2640, Australia |
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| Abstract: | Chaos game representation (CGR) was proposed recently to visualize nucleotide sequences as one of the first applications of this technique in the field of biochemistry.1 In this paper we would like to demonstrate that representations similar to CGR can be generalized and applied for visualizing and analyzing protein databases. Examples of applications will be presented for investigating regularities, and motifs in the primary structure of proteins, and for analyzing possible structural attachments on the super-secondary structure level of proteins. A further application will be presented for testing structure prediction methods using CGR. |
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