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Collection of alkenylcoumarin derivatives as Taq DNA polymerase inhibitors: SAR and in silico simulations

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Abstract

Using a feasible method, we generated a small focused library of structurally related alkenylcoumarins. These compounds were evaluated as potential antitumoral agents against Taq DNA polymerase. 6-(pent-4-enyloxy)-coumarin (7) IC50 = 48.33 ± 2.85 μM was defined as a small molecule able to disturb DNA replication. Docking and Molecular Dynamic Simulations suggest an active-site binding. Structure/activity relationship was reasonably established. Compound 7 represents a potential structure for further studies in the development of new anti-cancer DNA/polymerase binding agents.

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References

  • Bernauer J, Janin J, Poupon J (2007) A new protein–protein docking scoring function based on interface residue properties. Bioinformatics 23:555–562

    Article  CAS  PubMed  Google Scholar 

  • Garro HA, García C, Martín VS, Tonn CE, Pungitore CR (2015a) A new iridoid, verbascoside and derivatives with inhibitory activity against Taq DNA polymerase. Bioorg Med Chem Lett 25:914–918

    Article  CAS  PubMed  Google Scholar 

  • Garro HA, Pungitore CR (2015b) Coumarins as potential inhibitors of DNA polymerases and reverse transcriptases. Searching new antiretroviral and antitumoral drugs. Curr Drug Discov Technol 12:66–79

    Article  CAS  PubMed  Google Scholar 

  • Garro HA, Manzur MJ, Ciuffo GM, Tonn CE, Pungitore CR (2014a) Inhibition of reverse transcriptase and Taq DNA polymerase by compounds possessing the coumarin framework. Bioorg Med Chem Lett 24:760–764

    Article  Google Scholar 

  • Garro HA, García C, Martín VS, Tonn CE, Pungitore CR (2014b) Chemistry and biological activity of coumarins at molecular level. Nat Prod Comm 9:1091–1094

    CAS  Google Scholar 

  • Garro HA, Petroselli G, Pungitore CR, Tonn CE, Erra-Balsells R (2015c) Synthesis and characterization of conjugated olygomers by acetone self-condensation end-functionalized with 4-hydroxycoumarin. J Mater Environ Sci 6:1137–1141

    CAS  Google Scholar 

  • Ghiano DG, de la Iglesia A, Liu N, Tonge PJ, Morbidoni HR, Labadie GR (2017) Antitubercular activity of 1,2,3-triazolyl fatty acid derivatives. Eur J Med Chem 125:842–852

    Article  CAS  PubMed  Google Scholar 

  • Gutiérrez LJ, Angelina E, Gyebrovszki A, Fülöp L, Peruchena N, Baldoni HA, Penke B, Enriz RD (2017) New small-size peptides modulators of the exosite of BACE1 obtained from a structure-based design. J Biomol Struct Dyn 35:413–426

    Article  PubMed  Google Scholar 

  • Izaguirre JA, Catarello DP, Wozniak JM, Skeel RD (2001) Langevin stabilization of molecular dynamics. J Chem Phys 114:2009–2014

    Article  Google Scholar 

  • Kostova I (2007) Biologically active coumarins as inhibitors of HIV-1. Futur. HIV Ther 1:315–329

    Article  CAS  Google Scholar 

  • Kostova I, Genova P, Argirova R (2006) Structure-activity relationships of synthetic coumarins as HIV-1 inhibitors. Bioinorg Chem Appl 1:1–9

    CAS  Google Scholar 

  • Li B (2012) Protein docking prediction using predicted protein-protein interface. Bioinformatics 13:1–17

    Google Scholar 

  • Liu R, Li X, Lam KS (2017) Combinatorial chemistry in drug discovery. Curr Opin Chem Biol 38:117–126

    Article  CAS  PubMed  Google Scholar 

  • Martin OA, Garro HA, Kurina-Sanz MB, Pungitore CR, Tonn CE (2011) In silico study of the inhibition of DNA polymerase by a novel catalpol derivative. J Mol Model 17:2717–2723

    Article  CAS  PubMed  Google Scholar 

  • Mizushina Y, Akihisa T, Ukiya M, Hamasaki Y, Murakami-Nakai C, Kuriyama I, Takeuchi T, Sugawara F, Yoshida H (2005) Structural analysis of isosteviol and related compounds as DNA polymerase and DNA topoisomerase inhibitors. Life Sci 77:2127–2140

    Article  CAS  PubMed  Google Scholar 

  • Morris GM, Huey R, Lindstrom W, Sanner MF, Belew RK, Goodsell DS, OlsonAJ (2009) Autodock4 and AutoDockTools4: automated docking with selective receptor flexibility. J Comput Chem 16:2785–2791

    Article  Google Scholar 

  • Olmedo D, Bedoya LM, López-Pérez JL, Del Olmo E, Muñoz E, Alcamí J, Gupta MP, San Feliciano A (2012) 3-Phenylcoumarins as inhibitors of HIV-1 replication. Molecules 17:9245–9257

    Article  CAS  PubMed  Google Scholar 

  • Pungitore CR (2014) Natural products, synthetic and non-nucleoside compounds as inhibitors of enzymes related to DNA: Update 2013. Curr Enzym Inhib 10:13–38

    Article  CAS  Google Scholar 

  • Rayati S, Nejabat F (2016) Catalytic properties of the homologous series of the β-brominated-pyrrole manganese(III) tetraphenylporphyrins. Polyhedron 104:52–57

    Article  CAS  Google Scholar 

  • Stefanou V, Melagraki G, Afantitis A, Athanasellis G, Igglessi-Markopoulou O, McKee V, Markopoulos J (2011) Functionalized 4-hydroxy coumarins: novel synthesis, crystal structure and DFT calculations. Molecules 16:384–402

    Article  CAS  PubMed  Google Scholar 

  • Vega-Hissi E, Tosso R, Enriz RD, Gutiérrez LJ (2015) Molecular insight into the interaction mechanisms of inhibitors (R)-1t and (S)-1m with BACE1 protease: QM/MM investigations. Int J Quantum Chem 115:389–397

    Article  CAS  Google Scholar 

  • Venugopala KN, Odhav B (2013) Review on natural coumarin lead compounds for their pharmacological activity. J Biomed Biotechnol 1:2–14

    Google Scholar 

  • Wang J, Wolf RM, Caldwell JW, Kollman PA, Case DA (2004) Development and testing of a general amber force field. J Comput Chem 25:1157–1174

    Article  CAS  PubMed  Google Scholar 

  • Wijkmans JC, Beckett RP (2002) Combinatorial chemistry in anti-infectives research. Drug Discov Today 7:126–132

    Article  CAS  PubMed  Google Scholar 

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Acknowledgements

This research was supported by CONICET (PIP 00360) and UNSL (PROICO 02/2516). EFB thank CONICET for doctoral fellowship. HAG thank for post-doctoral position in the Max Planck Laboratory for Structural Biology, Chemistry, and Molecular Biophysics of Rosario (MPLbioR). We wish to thank to Lic. M. Ferrari, Dr. C. Ardanáz, and Dr. G. Labadie for their help. Also, we wish to thank to Dra. C. García and Prof. V. Martín from IUBO (Spain) for their help in the use of HRMS. We wish specially thank to Drs. L. Mascotti and M. Juri-Ayub for DNA material gently provided. We appreciate revision of the manuscript by staff from the “Instituto de Lenguas, Universidad Nacional de San Luis”. This work is a part of the doctoral thesis of EFB.

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Correspondence to Hugo A. Garro.

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Bruna-Haupt, E., Garro, H.A., Gutiérrez, L. et al. Collection of alkenylcoumarin derivatives as Taq DNA polymerase inhibitors: SAR and in silico simulations. Med Chem Res 27, 1432–1442 (2018). https://doi.org/10.1007/s00044-018-2160-6

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  • DOI: https://doi.org/10.1007/s00044-018-2160-6

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