Document Detail


Relationship between amino acid properties and functional parameters in olfactory receptors and discrimination of mutants with enhanced specificity.
MedLine Citation:
PMID:  22594995     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
BACKGROUND: Olfactory receptors are key components in signal transduction. Mutations in olfactory receptors alter the odor response, which is a fundamental response of organisms to their immediate environment. Understanding the relationship between odorant response and mutations in olfactory receptors is an important problem in bioinformatics and computational biology. In this work, we have systematically analyzed the relationship between various physical, chemical, energetic and conformational properties of amino acid residues, and the change of odor response/compound's potency/half maximal effective concentration (EC50) due to amino acid substitutions.
RESULTS: We observed that both the characteristics of odorant molecule (ligand) and amino acid properties are important for odor response and EC50. Additional information on neighboring and surrounding residues of the mutants enhanced the correlation between amino acid properties and EC50. Further, amino acid properties have been combined systematically using multiple regression techniques and we obtained a correlation of 0.90-0.98 with odor response/EC50 of goldfish, mouse and human olfactory receptors. In addition, we have utilized machine learning methods to discriminate the mutants, which enhance or reduce EC50 values upon mutation and we obtained an accuracy of 93% and 79% for self-consistency and jack-knife tests, respectively.
CONCLUSIONS: Our analysis provides deep insights for understanding the odor response of olfactory receptor mutants and the present method could be used for identifying the mutants with enhanced specificity.
Authors:
M Michael Gromiha; K Harini; R Sowdhamini; Kazuhiko Fukui
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't     Date:  2012-05-08
Journal Detail:
Title:  BMC bioinformatics     Volume:  13 Suppl 7     ISSN:  1471-2105     ISO Abbreviation:  BMC Bioinformatics     Publication Date:  2012  
Date Detail:
Created Date:  2012-05-18     Completed Date:  2013-01-24     Revised Date:  2013-06-24    
Medline Journal Info:
Nlm Unique ID:  100965194     Medline TA:  BMC Bioinformatics     Country:  England    
Other Details:
Languages:  eng     Pagination:  S1     Citation Subset:  IM    
Affiliation:
Department of Biotechnology, Indian Institute of Technology Madras, Chennai 600 036, Tamilnadu, India. gromiha@iitm.ac.in
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MeSH Terms
Descriptor/Qualifier:
Amino Acid Substitution*
Animals
Goldfish / metabolism
Humans
Ligands
Mice
Molecular Conformation
Mutation*
Odors
Receptors, Odorant / chemistry*,  genetics*,  metabolism
Regression Analysis
Signal Transduction
Chemical
Reg. No./Substance:
0/Ligands; 0/Receptors, Odorant
Comments/Corrections

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