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Molecular docking and QSAR of aplyronine A and analogues: potent inhibitors of actin

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Abstract

Actin-binding natural products have been identified as a potential basis for the design of cancer therapeutic agents. We report flexible docking and QSAR studies on aplyronine A analogues. Our findings show the macrolide ‘tail’ to be fundamental for the depolymerisation effect of actin-binding macrolides and that it is the tail which forms the initial interaction with the actin rather than the macrocycle, as previously believed. Docking energy scores for the compounds were highly correlated with actin depolymerisation activity. The 3D-QSAR models were predictive, with the best model giving a q 2 value of 0.85 and a r 2 of 0.94. Results from the docking simulations and the interpretation from QSAR “coeff*stdev” contour maps provide insight into the binding mechanism of each analogue and highlight key features that influence depolymerisation activity. The results herein may aid the design of a putative set of analogues that can help produce efficacious and tolerable anti-tumour agents. Finally, using the best QSAR model, we have also made genuine predictions for an independent set of recently reported aplyronine analogues.

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Acknowledgments

We thank Craig Bruce for advice and useful discussions.

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Authors and Affiliations

  1. School of Chemistry, University of Nottingham, University Park, Nottingham, NG7 2RD, UK

    Abrar Hussain & Jonathan D. Hirst

  2. Cresset BioMolecular Discovery Ltd., BioPark Hertfordshire, Welwyn Garden City, Hertfordshire, AL7 3AX, UK

    James L. Melville

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  1. Abrar Hussain
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Correspondence to Jonathan D. Hirst.

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Hussain, A., Melville, J.L. & Hirst, J.D. Molecular docking and QSAR of aplyronine A and analogues: potent inhibitors of actin. J Comput Aided Mol Des 24, 1–15 (2010). https://doi.org/10.1007/s10822-009-9307-y

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