Molecular evaluation using in silico protein interaction profiles

Yoshiharu Hayashi, Katsuyoshi Sakaguchi, Mine Kobayashi, Masaki Kobayashi, Yo Kikuchi, Eiichiro Ichiishi

Research output: Contribution to journalArticle

12 Citations (Scopus)

Abstract

Motivation: To find a correlation between the activities and structures of molecules is one of the most important subjects for molecular evaluation study. Traditional quantitative structure-activity relationship (QSAR) methodologies represent those attempts using physicochemical descriptors. Creating a new molecular description factor based on the results of a computational docking study will add new dimensions to molecular evaluation. Results: We propose a new molecular description factor analysis system called the Comparative Molecular Interaction Profile Analysis (CoMIPA) system in which the AutoDock program is used for docking evaluation of small molecule compound-protein complexes. Interaction energies are calculated, and the data sets obtained are called interaction profiles (IPFs). Using the IPF as a scoring indicator, the system could be a powerful tool to cluster the interacting properties between small molecules and bio macromolecules such as ligand-receptor bindings. Further development of the system will enable us to predict the adverse effects of a drug candidate.

Original languageEnglish
Pages (from-to)1514-1523
Number of pages10
JournalBioinformatics
Volume19
Issue number12
DOIs
Publication statusPublished - 2003 Aug 12
Externally publishedYes

Fingerprint

Computer Simulation
Proteins
Protein
Molecules
Docking
Evaluation
Interaction
Quantitative Structure-Activity Relationship
Molecular interactions
Factor analysis
Macromolecules
Statistical Factor Analysis
Quantitative Structure-activity Relationship
Factor Analysis
Systems Analysis
Ligands
Scoring
Receptor
Descriptors
Drugs

ASJC Scopus subject areas

  • Clinical Biochemistry
  • Computer Science Applications
  • Computational Theory and Mathematics

Cite this

Hayashi, Y., Sakaguchi, K., Kobayashi, M., Kobayashi, M., Kikuchi, Y., & Ichiishi, E. (2003). Molecular evaluation using in silico protein interaction profiles. Bioinformatics, 19(12), 1514-1523. https://doi.org/10.1093/bioinformatics/btg189

Molecular evaluation using in silico protein interaction profiles. / Hayashi, Yoshiharu; Sakaguchi, Katsuyoshi; Kobayashi, Mine; Kobayashi, Masaki; Kikuchi, Yo; Ichiishi, Eiichiro.

In: Bioinformatics, Vol. 19, No. 12, 12.08.2003, p. 1514-1523.

Research output: Contribution to journalArticle

Hayashi, Y, Sakaguchi, K, Kobayashi, M, Kobayashi, M, Kikuchi, Y & Ichiishi, E 2003, 'Molecular evaluation using in silico protein interaction profiles', Bioinformatics, vol. 19, no. 12, pp. 1514-1523. https://doi.org/10.1093/bioinformatics/btg189
Hayashi Y, Sakaguchi K, Kobayashi M, Kobayashi M, Kikuchi Y, Ichiishi E. Molecular evaluation using in silico protein interaction profiles. Bioinformatics. 2003 Aug 12;19(12):1514-1523. https://doi.org/10.1093/bioinformatics/btg189
Hayashi, Yoshiharu ; Sakaguchi, Katsuyoshi ; Kobayashi, Mine ; Kobayashi, Masaki ; Kikuchi, Yo ; Ichiishi, Eiichiro. / Molecular evaluation using in silico protein interaction profiles. In: Bioinformatics. 2003 ; Vol. 19, No. 12. pp. 1514-1523.
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