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Trainable structure–activity relationship model for virtual screening of CYP3A4 inhibition

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Abstract

A new structure–activity relationship model predicting the probability for a compound to inhibit human cytochrome P450 3A4 has been developed using data for >800 compounds from various literature sources and tested on PubChem screening data. Novel GALAS (Global, Adjusted Locally According to Similarity) modeling methodology has been used, which is a combination of baseline global QSAR model and local similarity based corrections. GALAS modeling method allows forecasting the reliability of prediction thus defining the model applicability domain. For compounds within this domain the statistical results of the final model approach the data consistency between experimental data from literature and PubChem datasets with the overall accuracy of 89%. However, the original model is applicable only for less than a half of PubChem database. Since the similarity correction procedure of GALAS modeling method allows straightforward model training, the possibility to expand the applicability domain has been investigated. Experimental data from PubChem dataset served as an example of in-house high-throughput screening data. The model successfully adapted itself to both data classified using the same and different IC50 threshold compared with the training set. In addition, adjustment of the CYP3A4 inhibition model to compounds with a novel chemical scaffold has been demonstrated. The reported GALAS model is proposed as a useful tool for virtual screening of compounds for possible drug-drug interactions even prior to the actual synthesis.

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Authors and Affiliations

  1. ACD/Labs Inc., A.Mickeviciaus g. 29, LT-08117, Vilnius, Lithuania

    Remigijus Didziapetris, Justas Dapkunas, Andrius Sazonovas & Pranas Japertas

  2. Department of Biochemistry and Biophysics, Vilnius University, M.K.Ciurlionio g. 21/27, LT-03101, Vilnius, Lithuania

    Justas Dapkunas

Authors
  1. Remigijus Didziapetris
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  2. Justas Dapkunas
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  3. Andrius Sazonovas
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  4. Pranas Japertas
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Correspondence to Justas Dapkunas.

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Didziapetris, R., Dapkunas, J., Sazonovas, A. et al. Trainable structure–activity relationship model for virtual screening of CYP3A4 inhibition. J Comput Aided Mol Des 24, 891–906 (2010). https://doi.org/10.1007/s10822-010-9381-1

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  • DOI: https://doi.org/10.1007/s10822-010-9381-1

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