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Paper Abstract and Keywords
Presentation 2013-03-15 16:50
Distance Distribution Analysis in Pockets among Amino Acids
Makiko Miyoshi, Takayuki Itoh, Kei Yura (Ochanomizujoshi Univ.)
Abstract (in Japanese) (See Japanese page) 
(in English) Protein is the major component of the organism. It has a unique typical three-dimensional structure determined by the sequence of, amino acids. A hole (pocket) on the surface of a protein is known to be the best target for a drug to react. We started analyzing how "druggability" of proteins related to the locations amino acids in a pocket. For a starter of this study, this paper presents a visualization tool for distance distribution analysis between two types of amino acids in a pocket. When protein surface is provided by triangular meshes, this tool first identifies a pocket from the protein surface, specifies the deepest position of the pockets, and calculates distances between atoms of an amino acid and the deepest positions of the pocket. This tool then visualizes the distribution of the distances by scatterplots. This paper proposes the a biological interpretation of the visualization results.
Keyword (in Japanese) (See Japanese page) 
(in English) Visualization / Protein / Amino acid / Distance distribution analysis / Pocket identification / / /  
Reference Info. ITE Tech. Rep., vol. 37, no. 17, AIT2013-110, pp. 243-246, March 2013.
Paper #  
Date of Issue 2013-03-08 (AIT) 
ISSN Print edition: ISSN 1342-6893  Online edition: ISSN 2424-1970
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Conference Information
Committee AIT IIEEJ AS  
Conference Date 2013-03-15 - 2013-03-15 
Place (in Japanese) (See Japanese page) 
Place (in English) Keio Univ. 
Topics (in Japanese) (See Japanese page) 
Topics (in English)  
Paper Information
Registration To AS 
Conference Code 2013-03-AIT-IIEEJ-AS 
Language Japanese 
Title (in Japanese) (See Japanese page) 
Sub Title (in Japanese) (See Japanese page) 
Title (in English) Distance Distribution Analysis in Pockets among Amino Acids 
Sub Title (in English)  
Keyword(1) Visualization  
Keyword(2) Protein  
Keyword(3) Amino acid  
Keyword(4) Distance distribution analysis  
Keyword(5) Pocket identification  
1st Author's Name Makiko Miyoshi  
1st Author's Affiliation Ochanomizujosi University (Ochanomizujoshi Univ.)
2nd Author's Name Takayuki Itoh  
2nd Author's Affiliation Ochanomizujosi University (Ochanomizujoshi Univ.)
3rd Author's Name Kei Yura  
3rd Author's Affiliation Ochanomizujosi University (Ochanomizujoshi Univ.)
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Date Time 2013-03-15 16:50:00 
Presentation Time 90 
Registration for AS 
Paper # ITE-AIT2013-110 
Volume (vol) ITE-37 
Number (no) no.17 
Page pp.243-246 
#Pages ITE-4 
Date of Issue ITE-AIT-2013-03-08 

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