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Application of Chemoinformatic Tools for the Analysis of Virtual Screening Studies of Tubulin Inhibitors

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Innovations in Hybrid Intelligent Systems

Part of the book series: Advances in Soft Computing ((AINSC,volume 44))

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Abstract

Virtual screening (VS) experiments were applied to rank more than 700000 candidate lead-like virtual molecules in order of likelihood of binding to the colchicine site of tubulin, which is an important antitumor target. The best ranked compounds were clustered and classified by means of “ad hoc” semiautomatic chemoinformatic tools. The results obtained in this way were compared with those achieved by visual inspection protocols and the best were selected for synthesis and screening stages.

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References

  1. Kubinyi, H. Nat. Rev. Drug. Disc. 2003, 2, 665–9. Drug Research: Myths, Hype and Reality.

    Article  Google Scholar 

  2. Soichet, B. K. Nature 2004, 432, 862–865. Virtual Screening of Chemical Libraries.

    Article  Google Scholar 

  3. Leach, A. R.; Shoichet, B. K.; Peishoff, C. E. J. Med. Chem. 2006, 49, 5851–5855. Prediction of Protein-Ligand Interactions. Docking and Scoring: Successes and Gaps

    Article  Google Scholar 

  4. Warren, G. L.; Andrews, C. W.; Capelli, A.-M.; Clarke, B.; LaLonde, J.; Lambert, M. H.; Lindvall, M.; Nevins, N.; Semus, S. F.; Senger, S.; Tedesco, G.; Wall, I. D.; Woolven, J. M.; Peishoff, C. E.; Head, M. S. J. Med. Chem. 2006, 49, 5912–5931. A Critical Assessment of Docking Programs and Scoring Functions.

    Article  Google Scholar 

  5. Jordan, M. A.; Wilson, L.; Nat. Rev. Cancer 2004; 4, 253–265. Microtubules as a Target for Anticancer Drugs.

    Article  Google Scholar 

  6. Ravelli R. B.; Gigant, B.; Curmi, P. A.; Jourdain, I.; Lachkar, S.; Sobel, A.; Knossow, M. Nature 2004, 428, 198–202. Insight into Tubulin Regulation from a Complex with Colchicine and a Stathmin-Like Domain.

    Article  Google Scholar 

  7. http://www.wwpdb.org/

    Google Scholar 

  8. http://www.accelrys.com/

    Google Scholar 

  9. Carlson, H. A.; McCammon, J. A. Mol. Pharm. 2000, 57, 213–218. Accommodating Protein Flexibility in Computational Drug Design.

    Google Scholar 

  10. Sotriffer, C. A.; Dramburg, I. J. Med. Chem. 2005, 48, 3122–3. “In Situ Cross-Docking” To Simultaneously Address Multiple Targets

    Article  Google Scholar 

  11. Irwin, J. J.; Shoichet, B. K. J. Chem. Inf. Model. 2005; 45, 177–82. ZINC-A Free Database of Commercially Available Compounds for Virtual Screening.

    Article  Google Scholar 

  12. Jain, A. N. J. Med. Chem. 2003, 46, 499–511. Surflex: Fully Automatic Flexible Molecular Docking Using a Molecular Similarity-Based Search Engine.

    Article  Google Scholar 

  13. Carr, R. A. E.; Congreve, M.; Murray, C. W.; Rees, D. C. Drug Disc. Dev. 2005, 14, 987–92. Fragment-based Lead Discovery: leads by design

    Google Scholar 

  14. MarvinBeans 4.1.2, 2006, ChemAxon (http://www.chemaxon.com)

    Google Scholar 

  15. Macromodel v. 5.1, Schrodinger, LLC, New York, NY, 1998.

    Google Scholar 

  16. Duda, R.; Hart; Stark, P. Pattern Classification; John Wiley and Sons: New York, 2001.

    MATH  Google Scholar 

  17. http://perldoc.perl.org

    Google Scholar 

  18. Kochev, N., Monev, V., Bangov, I.: Searching Chemical Structures. In: Chemoinformatics: A textbook. Wiley-VCH, 2003, 291–318.

    Google Scholar 

  19. Visualization of the Superposed Complexes was done with Jmol: http://www.jmol.org

    Google Scholar 

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© 2007 Springer-Verlag Berlin Heidelberg

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Peláez, R., López, J.L., Medarde, M. (2007). Application of Chemoinformatic Tools for the Analysis of Virtual Screening Studies of Tubulin Inhibitors. In: Corchado, E., Corchado, J.M., Abraham, A. (eds) Innovations in Hybrid Intelligent Systems. Advances in Soft Computing, vol 44. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-74972-1_53

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  • DOI: https://doi.org/10.1007/978-3-540-74972-1_53

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-74971-4

  • Online ISBN: 978-3-540-74972-1

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