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Metabion) and 5ʹ‐dabcyl‐AGCTCCCAGGCTCAGATC‐3ʹ (HPLC, dry, QC:
Mass Check) at a final concentration of 0.25 µM. The reaction mixture
was incubated for 10 min at 37°C in a multilabel counter plate reader
Victor 3 (Model 1420‐051, Perkin Elmer), and the product was quantified
at 490/528 nm (excitation/emission wavelength). The RT‐associated
RDDP activity was measured in 30 µl volume containing 60 mM Tris‐
HCl pH 8.1, 8 mM MgCl2, 60 mM KCl, 13 mM DTT, 100 µM dTTP, 5 nM
HIV‐1 RT, and 2.5 µM poly(A)‐oligo(dT) (EnzCheck Invitrogen). The re-
action mixture was incubated for 30 min at 37°C. The enzymatic reaction
was stopped by addition of EDTA. Reaction products were detected by
picogreen addition and measured with a Victor 3 (Perkin) plate reader at
502/523 nm. All experiments were done in triplicate.
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|
4.3
Molecular modeling
A query of the protein data bank for a high‐resolution structure of the
HIV‐1 RNase H in complex with an active site inhibitor identified the
1.71 Å resolution structure 4QAG.[35,43] This structure was prepared for
docking using OESpruce and OEChem (OpenEye toolkit 2020.2.0) by
protonation at pH 7.4. OEDocking (OpenEye toolkit 2020.2.0) was used
to dock garcinol and isogarcinol into the active site of the prepared HIV
RNase H domain. SMILES notations of both compounds were taken from
PubChem,[44] reasonable tautomeric states were assigned using
OEQuacpac (OpenEye toolkit 2020.2.0), and conformations for each
tautomer were generated using the dense setting from OEOmega
(OpenEye toolkit 2020.2.0). The hybrid protocol was chosen for docking
employing the cocrystallized ligand of 4QAG to bias ligand placement,
which finally led to the generation of 20 docking poses per compound.
Afterward, docking poses were energetically minimized inside the RNase
H binding pocket using LigandScout 4.4 (license kindly provided by Prof.
G. Wolber) and the MMFF94s force field.[45,46]
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M. Carcelli, R. Badia, E. Riveira‐Munoz, F. Esposito, C. Parolin,
J. A. Esté, N. Grandi, E. Tramontano, Viruses 2020, 12, 729.
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apeutic Uses of Spices: Modern Uses for Ancient Medicine, World
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ACKNOWLEDGMENTS
[20] H. Yuan, Q. Ma, L. Ye, G. Piao, Molecules 2016, 21, 559.
[21] Z. Wang, L. Yang, J. Ethnopharmacol. 2021, 270, 113896.
[22] S. Padhye, A. Ahmad, N. Oswal, F. H. Sarkar, J. Hematol. Oncol. 2009,
2, 38.
The authors thank Nadine Beck for assistance in the preparation of
garcinol and isogarcinol. Angela Corona and Enzo Tramontano were
supported by Regione Autonoma della Sardegna (RAS) (LR 07/2017,
annualità 2017) grant no. RASSR17032. Open Access funding
enabled and organized by Projekt DEAL.
[23] N. Saadat, S. V. Gupta, J. Oncol. 2012, 2012, 647206.
[24] R. Ciochina, R. B. Grossman, Chem. Rev. 2006, 106, 3963.
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[26] B. Biersack, Effects of garcinol from kokum (Garcinia indica) on the
prevention and treatment of cancer, in Critical dietary factors in
Cancer Chemotherapy (Eds: M. F. Ullah, A. Ahmad), Springer In-
ternational Publishing Switzerland, Cham, 2016.
CONFLICT OF INTERESTS
The authors declare that there are no conflicts of interests.
[27] R. Schobert, B. Biersack, Chem. Biodiv. 2019, 16, e1900366.
[28] A. Ahmad, S. H. Sarkar, A. Aboukameel, S. Ali, B. Biersack, S. Seibt,
Y. Li, B. Bao, D. Kong, S. Banerjee, R. Schobert, S. B. Padhye,
F. H. Sarkar, Carcinogenesis 2012, 33, 2450.
ORCID
Angela Corona
Andrea Volkamer
Bernhard Biersack
Enzo Tramontano
[29] S.‐H. Tu, Y.‐S. Chiou, N. Kalyanam, C.‐T. Ho, L.‐C. Chen, M.‐H. Pan,
Food Funct. 2017, 8, 1067.
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