Multi-Substituted Quinolines as HIV-1 Integrase Allosteric Inhibitors
Abstract
1. Introduction
2. Materials and Methods
3. Results
4. Discussion
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
- Smith, S.J.; Zhao, X.Z.; Passos, D.O.; Lyumkis, D.; Burke, T.R., Jr.; Hughes, S.H. Integrase strand transfer inhibitors are effective anti-HIV drugs. Viruses 2021, 13, 205. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Quashie, P.K.; Mesplede, T.; Wainberg, M.A. Evolution of HIV integrase resistance mutations. Curr. Opin. Infect. Dis. 2013, 26, 43–49. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Chiu, T.K.; Davies, D.R. Structure and function of HIV-1 integrase. Curr. Top. Med. Chem. 2004, 4, 965–977. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Engelman, A.; Cherepanov, P. Retroviral integrase structure and DNA recombination mechanism. Microbiol. Spectr. 2014, 2, 1–22. [Google Scholar] [CrossRef] [Scilit]
- Krishnan, L.; Engelman, A. Retroviral integrase proteins and HIV-1 DNA integration. J. Biol. Chem. 2012, 287, 40858–40866. [Google Scholar] [CrossRef] [Scilit]
- Cherepanov, P.; Maertens, G.N.; Hare, S. Structural insights into the retroviral DNA integration apparatus. Curr. Opin. Struct. Biol. 2011, 21, 249–256. [Google Scholar] [CrossRef] [Scilit]
- Li, X.; Krishnan, L.; Cherepanov, P.; Engelman, A. Structural biology of retroviral DNA integration. Virology 2011, 411, 194–205. [Google Scholar] [CrossRef] [Scilit]
- Engelman, A.; Cherepanov, P. The structural biology of HIV-1: Mechanistic and therapeutic insights. Nat. Rev. Microbiol. 2012, 10, 279–290. [Google Scholar] [CrossRef] [Scilit]
- Busschots, K.; Vercammen, J.; Emiliani, S.; Benarous, R.; Engelborghs, Y.; Christ, F.; Debyser, Z. The interaction of LEDGF/p75 with integrase is lentivirus-specific and promotes DNA binding. J. Biol. Chem. 2005, 280, 17841–17847. [Google Scholar] [CrossRef] [Scilit]
- Cherepanov, P.; Maertens, G.; Proost, P.; Devreese, B.; van Beeumen, J.; Engelborghs, Y.; de Clercq, E.; Debyser, Z. HIV-1 integrase forms stable tetramers and associates with LEDGF/p75 protein in human cells. J. Biol. Chem. 2003, 278, 372–381. [Google Scholar] [CrossRef] [Scilit]
- Shun, M.C.; Raghavendra, N.K.; Vandegraaff, N.; Daigle, J.E.; Hughes, S.; Kellam, P.; Cherepanov, P.; Engelman, A. LEDGF/p75 functions downstream from preintegration complex formation to effect gene-specific HIV-1 integration. Genes Dev. 2007, 21, 1767–1778. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Cherepanov, P.; Ambrosio, A.L.; Rahman, S.; Ellenberger, T.; Engelman, A. Structural basis for the recognition between HIV-1 integrase and transcriptional coactivator p75. Proc. Natl. Acad. Sci. USA 2005, 102, 17308–17313. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Ciuffi, A.; Llano, M.; Poeschla, E.; Hoffmann, C.; Leipzig, J.; Shinn, P.; Ecker, J.R.; Bushman, F. A role for LEDGF/p75 in targeting HIV DNA integration. Nat. Med. 2005, 11, 1287–1289. [Google Scholar] [CrossRef] [Scilit]
- Llano, M.; Saenz, D.T.; Meehan, A.; Wongthida, P.; Peretz, M.; Walker, W.H.; Teo, W.; Poeschla, E.M. An essential role for LEDGF/p75 in HIV integration. Science 2006, 314, 461–464. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Cherepanov, P.; Sun, Z.Y.; Rahman, S.; Maertens, G.; Wagner, G.; Engelman, A. Solution structure of the HIV-1 integrase-binding domain in LEDGF/p75. Nat. Struct. Mol. Biol. 2005, 12, 526–532. [Google Scholar] [CrossRef] [Scilit]
- Kessl, J.J.; Jena, N.; Koh, Y.; Taskent-Sezgin, H.; Slaughter, A.; Feng, L.; de Silva, S.; Wu, L.; le Grice, S.F.; Engelman, A.; et al. Multimode, cooperative mechanism of action of allosteric HIV-1 integrase inhibitors. J. Biol. Chem. 2012, 287, 16801–16811. [Google Scholar] [CrossRef] [Scilit]
- Feng, L.; Sharma, A.; Slaughter, A.; Jena, N.; Koh, Y.; Shkriabai, N.; Larue, R.C.; Patel, P.A.; Mitsuya, H.; Kessl, J.J.; et al. The A128T resistance mutation reveals aberrant protein multimerization as the primary mechanism of action of allosteric HIV-1 integrase inhibitors. J. Biol. Chem. 2013, 288, 15813–15820. [Google Scholar] [CrossRef] [Scilit]
- Sharma, A.; Slaughter, A.; Jena, N.; Feng, L.; Kessl, J.J.; Fadel, H.J.; Malani, N.; Male, F.; Wu, L.; Poeschla, E.; et al. A new class of multimerization selective inhibitors of HIV-1 integrase. PLoS Pathog. 2014, 10, e1004171. [Google Scholar] [CrossRef] [Scilit]
- Patel, P.A.; Kvaratskhelia, N.; Mansour, Y.; Antwi, J.; Feng, L.; Koneru, P.; Kobe, M.J.; Jena, N.; Shi, G.; Mohamed, M.S.; et al. Indole-based allosteric inhibitors of HIV-1 integrase. Bioorg. Med. Chem. Lett. 2016, 26, 4748–4752. [Google Scholar] [CrossRef] [Scilit]
- Jentsch, N.G.; Hart, A.P.; Hume, J.D.; Sun, J.; McNeely, K.A.; Lama, C.; Pigza, J.A.; Donahue, M.G.; Kessl, J.J. Synthesis and evaluation of aryl quinolines as HIV-1 integrase multimerization inhibitors. ACS Med. Chem. Lett. 2018, 9, 1007–1012. [Google Scholar] [CrossRef] [Scilit]
- Christ, F.; Voet, A.; Marchand, A.; Nicolet, S.; Desimmie, B.A.; Marchand, D.; Bardiot, D.; van der Veken, N.J.; van Remoortel, B.; Strelkov, S.V.; et al. Rational design of small-molecule inhibitors of the LEDGF/p75-integrase interaction and HIV replication. Nat. Chem. Biol. 2010, 6, 442–448. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Tsiang, M.; Jones, G.S.; Niedziela-Majka, A.; Kan, E.; Lansdon, E.B.; Huang, W.; Hung, M.; Samuel, D.; Novikov, N.; Xu, Y.; et al. New class of HIV-1 integrase (IN) inhibitors with a dual mode of action. J. Biol. Chem. 2012, 287, 21189–21203. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Bonnard, D.; le Rouzic, E.; Eiler, S.; Amadori, C.; Orlov, I.; Bruneau, J.M.; Brias, J.; Barbion, J.; Chevreuil, F.; Spehner, D.; et al. Structure-function analyses unravel distinct effects of allosteric inhibitors of HIV-1 integrase on viral maturation and integration. J. Biol. Chem. 2018, 293, 6172–6186. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Christ, F.; Shaw, S.; Demeulemeester, J.; Desimmie, B.A.; Marchand, A.; Butler, S.; Smets, W.; Chaltin, P.; Westby, M.; Debyser, Z.; et al. Small-molecule inhibitors of the LEDGF/p75 binding site of integrase block HIV replication and modulate integrase multimerization. Antimicrob. Agents Chemother. 2012, 56, 4365–4374. [Google Scholar] [CrossRef] [Scilit]
- Jurado, K.A.; Wang, H.; Slaughter, A.; Feng, L.; Kessl, J.J.; Koh, Y.; Wang, W.; Ballandras-Colas, A.; Patel, P.A.; Fuchs, J.R.; et al. Allosteric integrase inhibitor potency is determined through the inhibition of HIV-1 particle maturation. Proc. Natl. Acad. Sci. USA 2013, 110, 8690–8695. [Google Scholar] [CrossRef] [Scilit]
- Kessl, J.J.; Kutluay, S.B.; Townsend, D.; Rebensburg, S.; Slaughter, A.; Larue, R.C.; Shkriabai, N.; Bakouche, N.; Fuchs, J.R.; Bieniasz, P.D.; et al. HIV-1 integrase binds the viral RNA genome and is essential during virion morphogenesis. Cell 2016, 166, 1257–1268. [Google Scholar] [CrossRef] [Scilit]
- Deng, N.; Hoyte, A.; Mansour, Y.E.; Mohamed, M.S.; Fuchs, J.R.; Engelman, A.N.; Kvaratskhelia, M.; Levy, R. Allosteric HIV-1 integrase inhibitors promote aberrant protein multimerization by directly mediating inter-subunit interactions: Structural and thermodynamic modeling studies. Protein Sci. 2016, 25, 1911–1917. [Google Scholar] [CrossRef] [Scilit]
- Gupta, K.; Turkki, V.; Sherrill-Mix, S.; Hwang, Y.; Eilers, G.; Taylor, L.; McDanal, C.; Wang, P.; Temelkoff, D.; Nolte, R.T.; et al. Structural basis for inhibitor-induced aggregation of HIV integrase. PLoS Biol. 2016, 14, e1002584. [Google Scholar] [CrossRef] [Scilit]
- Koneru, P.C.; Francis, A.C.; Deng, N.; Rebensburg, S.V.; Hoyte, A.C.; Lindenberger, J.; Adu-Ampratwum, D.; Larue, R.C.; Wempe, M.F.; Engelman, A.N.; et al. HIV-1 integrase tetramers are the antiviral target of pyridine-based allosteric integrase inhibitors. Elife 2019, 8, e46344. [Google Scholar] [CrossRef] [Scilit]
- Shkriabai, N.; Dharmarajan, V.; Slaughter, A.; Kessl, J.J.; Larue, R.C.; Feng, L.; Fuchs, J.R.; Griffin, P.R.; Kvaratskhelia, M. A critical role of the C-terminal segment for allosteric inhibitor-induced aberrant multimerization of HIV-1 integrase. J. Biol. Chem. 2014, 289, 26430–26440. [Google Scholar] [CrossRef] [Scilit]
- Sun, J.; Patel, K.; Hume, J.; Pigza, J.A.; Donahue, M.G.; Kessl, J.J. Optimized binding of substituted quinoline ALLINIs within the HIV-1 integrase oligomer. J. Biol. Chem. 2021, 296, 100363. [Google Scholar] [CrossRef] [Scilit] [PubMed]
- Kessl, J.J.; Sharma, A.; Kvaratskhelia, M. Methods for the analyses of inhibitor-induced aberrant multimerization of HIV-1 integrase. Methods Mol. Biol. 2016, 1354, 149–164. [Google Scholar] [PubMed]
- Fader, L.D.; Malenfant, E.; Parisien, M.; Carson, R.; Bilodeau, F.; Landry, S.; Pesant, M.; Brochu, C.; Morin, S.; Chabot, C.; et al. Discovery of BI 224436, a noncatalytic site integrase inhibitor (NCINI) of HIV-1. ACS Med. Chem. Lett. 2014, 5, 422–427. [Google Scholar] [CrossRef] [Scilit]
- Smethurst, C.; Engelhardt, H.; Gianni, D.; Reiser, U. Dihydroquinazolinone Analogues. U.S. Patent 9,199,988, 1 December 2015. [Google Scholar]
- Zhou, X.Y.; Chen, X.; Wang, L.G. Highly efficient Brønsted acid and Lewis acid catalysis systems for the Friedländer quinoline synthesis. Synth. Commun. 2018, 48, 830–837. [Google Scholar] [CrossRef] [Scilit]
- Benarous, R.; Chevreuil, F.; Ledoussal, B.; Chasset, S.; le Strat, F. Inhibitors of Viral Replication, Their Process of Preparation and Their Therapeutical Uses. U.S. Patent US9,604,900B2, 28 March 2017. [Google Scholar]
- Babaoglu, K.; Brizgys, G.; Guo, H.; Hrvatin, P.; Lansdon, E.; Link, J.O.; Liu, H.; McFadden, R.; Mitchell, M.L.; Qi, Y.; et al. Naphthalene Acetic Acid Derivative against HIV Infection. U.S. Patent US9.284,323B2, 15 March 2016. [Google Scholar]
- Slaughter, A.; Jurado, K.A.; Deng, N.; Feng, L.; Kessl, J.J.; Shkriabai, N.; Larue, R.C.; Fadel, H.J.; Patel, P.A.; Jena, N.; et al. The mechanism of H171T resistance reveals the importance of Ndelta-protonated His171 for the binding of allosteric inhibitor BI-D to HIV-1 integrase. Retrovirology 2014, 11, 100. [Google Scholar] [CrossRef] [Scilit]
- Matter, H.; Nazare, M.; Gussregen, S.; Will, D.W.; Schreuder, H.; Bauer, A.; Urmann, M.; Ritter, K.; Wagner, M.; Wehner, V. Evidence for C-Cl/C-Br…pi interactions as an important contribution to protein-ligand binding affinity. Angew Chem. Int. Ed. Engl. 2009, 48, 2911–2916. [Google Scholar] [CrossRef] [Scilit] [PubMed]






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| Compound | R | EC50 (µM) |
| 1 | H | 0.10 ±0.02 a |
| ALLINI-2 | Br | 0.09 ±0.01 b |
| 8a | I | 0.20 ±0.06 |
| 8b | NH2 | 0.19 ±0.05 |
![]() | |||||
| Compound | R | EC50 (µM) | Compound | R | EC50 (µM) |
| 8c | ![]() | 1.17 ± 0.14 | 8m | ![]() | 0.57 ± 0.29 |
| 8d | ![]() | 1.59 ± 0.04 | 8n | ![]() | NA |
| 8e | ![]() | 1.93 ± 0.01 | 8o | ![]() | 0.38 ± 0.01 |
| 8f | ![]() | 1.29 ± 0.01 | 8p | ![]() | 0.97 ± 0.40 |
| 8g | ![]() | 1.28 ± 0.01 | 8q | ![]() | NA a |
| 8h | ![]() | 1.30 ± 0.37 | 8r | ![]() | 1.08 ± 0.17 |
| 8i | ![]() | 1.20 ± 0.14 | 8s | ![]() | 1.53 ± 0.13 |
| 8j | ![]() | NA | 8t | ![]() | NA |
| 8k | ![]() | NA | 8u | ![]() | 1.53 ± 0.33 |
| 8l | ![]() | NA a | |||
![]() | ||
| Compound | R | EC50 (µM) |
| 16aa | Br | 0.09 ± 0.01 |
| 16ab | ![]() | 0.28 ± 0.03 |
| 16ac | ![]() | 0.24 ± 0.01 |
| 16ad | ![]() | 0.35 ± 0.08 |
| 16ae | ![]() | 0.26 ± 0.04 |
![]() | |||
| Compound | R1 | R2 | EC50 (µM) |
| 2 | H | H | 0.08 ± 0.01 a |
| 17 | Br | H | 0.10 ± 0.02 |
| 18 | Me | H | 0.09 ± 0.01 |
| 16ba | H | Br | 0.05 ± 0.01 |
| 19 | H | Cl | 0.08 ± 0.01 |
![]() | |||||
| Compound | R1 | R2 | WT-IC50 (µM) | A128T-IC50 (µM) | |
| 2 | H | H | 0.7 ± 0.1 | 1.1 ± 0.2 | |
| 17 | Br | H | 0.3 ± 0.1 | 10.2 ± 2.5 | |
| 16ba | H | Br | 0.6 ± 0.1 | 0.3 ± 0.1 | |
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Dinh, L.P.; Sun, J.; Glenn, C.D.; Patel, K.; Pigza, J.A.; Donahue, M.G.; Yet, L.; Kessl, J.J. Multi-Substituted Quinolines as HIV-1 Integrase Allosteric Inhibitors. Viruses 2022, 14, 1466. https://doi.org/10.3390/v14071466
Dinh LP, Sun J, Glenn CD, Patel K, Pigza JA, Donahue MG, Yet L, Kessl JJ. Multi-Substituted Quinolines as HIV-1 Integrase Allosteric Inhibitors. Viruses. 2022; 14(7):1466. https://doi.org/10.3390/v14071466
Chicago/Turabian StyleDinh, Long Phi, Jian Sun, Courtney D. Glenn, Krunal Patel, Julie A. Pigza, Matthew G. Donahue, Larry Yet, and Jacques J. Kessl. 2022. "Multi-Substituted Quinolines as HIV-1 Integrase Allosteric Inhibitors" Viruses 14, no. 7: 1466. https://doi.org/10.3390/v14071466
APA StyleDinh, L. P., Sun, J., Glenn, C. D., Patel, K., Pigza, J. A., Donahue, M. G., Yet, L., & Kessl, J. J. (2022). Multi-Substituted Quinolines as HIV-1 Integrase Allosteric Inhibitors. Viruses, 14(7), 1466. https://doi.org/10.3390/v14071466





























