Conference Proceeding

A Protein Structure Data and Analysis System

DOI:10.1109/IEMBS.2005.1617067 pp.2847-2850 In proceeding of: Engineering in Medicine and Biology Society, 2005. IEEE-EMBS 2005. 27th Annual International Conference of the

ABSTRACT In this paper, we present the design and implementation of a protein structure data and analysis system that is only used in the lab for analyzing the proprietary data. It is capable of storing public protein data, such as the data in Protein Data Bank (PDB) Berman et al., (2000), and life scientists' proprietary data. This toolkit is targeted at life scientists who want to maintain proprietary protein structure data (may be incomplete), to search and query publicly known protein structures and to compare their structure data with others. The comparison functions can be used to find structure differences between two proteins at atom level, especially in mutant versions of proteins. The system can also be used as a tool of choosing better protein structure template in new protein's tertiary structure prediction. The system is developed in Java and the protein data is stored in a relational database (Oracle 9i)

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Keywords

al
 
analysis system
 
atom level
 
life scientists
 
life scientists' proprietary data
 
new protein's tertiary structure prediction
 
Oracle 9i
 
others
 
proprietary data
 
proprietary protein structure data
 
protein data
 
Protein Data Bank
 
protein structure data
 
protein structure template
 
protein structures
 
proteins
 
relational database
 
storing public protein data
 
structure data
 
structure differences