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Shalbi F, Ali AR. A mini-review on integrase inhibitors: The cornerstone of next-generation HIV treatment. Eur J Med Chem 2024; 279:116900. [PMID: 39332384 DOI: 10.1016/j.ejmech.2024.116900] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2024] [Revised: 09/12/2024] [Accepted: 09/18/2024] [Indexed: 09/29/2024]
Abstract
Integrase inhibitors represent one of the most remarkable and effective advances in the treatment of HIV-1 infection. Their lack of human cellular equivalence has established integrase as a unique and ideal target for HIV-1 treatment. Over the last two decades, a variety of drugs and small molecule inhibitors have been developed to control or treat HIV infection. Many of these FDA-approved drugs are considered first-line options for AIDS patients. Unfortunately, resistance to these drugs has dictated the development of novel and more efficacious antiretroviral drugs. In this review article, we illustrate the key classes of antiretroviral integrase inhibitors available. We provide a comprehensive analysis of recent advancements in the development of integrase inhibitors, focusing on novel compounds and their distinct mechanisms of action. Our literature review highlights emerging allosteric integrase inhibitors that offer improved efficacy, resistance profiles, and pharmacokinetics. By integrating these recent advancements and clinical insights, this review aims to provide a thorough and updated understanding of integrase inhibitors, emphasizing their evolving role in HIV treatment.
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Affiliation(s)
- Fathi Shalbi
- Department of Medicinal Chemistry, Faculty of Pharmacy, Mansoura University, Mansoura, 35516, Egypt
| | - Ahmed R Ali
- Department of Medicinal Chemistry, Faculty of Pharmacy, Mansoura University, Mansoura, 35516, Egypt.
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2
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Khan A, Ezati P, Rhim JW. Alizarin: Prospects and sustainability for food safety and quality monitoring applications. Colloids Surf B Biointerfaces 2023; 223:113169. [PMID: 36738702 DOI: 10.1016/j.colsurfb.2023.113169] [Citation(s) in RCA: 10] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2022] [Revised: 01/16/2023] [Accepted: 01/21/2023] [Indexed: 01/27/2023]
Abstract
Active and intelligent food packaging has emerged to ensure food safety, quality, or spoilage monitoring and extend the shelf life of food. The development of intelligent packaging has accelerated significantly in recent years with a focus on monitoring changes in the quality of packaged products in real-time throughout the food supply chain. As one of the popular natural colorants, alizarin has attracted much consideration due to its excellent functional properties and quality to color change under varying pH. Alizarin is an efficient and cost-effective biomaterial with numerous biological features such as antioxidant, antibacterial, non-cytotoxic, and antitumor. This review focuses on an in-depth summary and prospects for alizarin as a natural and safe colorant that has the potential to be incorporated into intelligent packaging to track the freshness of packaged foodstuffs. The use of alizarin as an intelligent packaging agent shows huge potential for the application of food packaging and brings it one step closer to real-time monitoring of food quality throughout the supply chain. Finally, various limitations and future requirements are discussed to underscore the importance of developing alizarin-based intelligent functional food packaging systems.
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Affiliation(s)
- Ajahar Khan
- BioNanocomposite Research Center, Department of Food and Nutrition, Kyung Hee University, 26 Kyungheedae-ro, Dongdaemun-gu, Seoul 02447, Republic of Korea
| | - Parya Ezati
- BioNanocomposite Research Center, Department of Food and Nutrition, Kyung Hee University, 26 Kyungheedae-ro, Dongdaemun-gu, Seoul 02447, Republic of Korea
| | - Jong-Whan Rhim
- BioNanocomposite Research Center, Department of Food and Nutrition, Kyung Hee University, 26 Kyungheedae-ro, Dongdaemun-gu, Seoul 02447, Republic of Korea.
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3
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Kumar Sharma A, Sheetal, Mehara P, Das P. Polystyrene stabilized Pd-Au nanoalloy for efficient synthesis of bis(indolyl)methanes from aryl iodides using oxalic acid as CO and H2 source. J IND ENG CHEM 2022. [DOI: 10.1016/j.jiec.2022.12.010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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4
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Blechschmidt DR, Lovstedt A, Kass SR. Metallocenium Lewis Acid Catalysts for Use in Friedel–Crafts Alkylation and Diels–Alder Reactions. Organometallics 2022. [DOI: 10.1021/acs.organomet.2c00408] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Daniel R. Blechschmidt
- Department of Chemistry, University of Minnesota, 207 Pleasant Street SE, Minneapolis, Minnesota 55455, United States
| | - Alex Lovstedt
- Department of Chemistry, University of Minnesota, 207 Pleasant Street SE, Minneapolis, Minnesota 55455, United States
| | - Steven R. Kass
- Department of Chemistry, University of Minnesota, 207 Pleasant Street SE, Minneapolis, Minnesota 55455, United States
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5
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Sapkota RR, Tak RK, Aryal V, Niroula D, Secosky NC, Dhungana RK, Giri R. Cu-Catalyzed Cyclization/Coupling of Alkenyl Aldimines with Arylzinc Reagents: Access to Indole-3-diarylmethanes. Org Lett 2022; 24:6213-6218. [PMID: 35969494 DOI: 10.1021/acs.orglett.2c02531] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We report a Cu(II)-catalyzed cyclization/coupling of alkenyl aldimines with arylzinc reagents to create indole-3-diarylmethane derivatives (Sapkota et al. ChemRxiv 2022, DOI: 10.26434/chemrxiv-2022-d6qn). The current reaction provides a unified modular route from readily available starting materials to indole-3-diarylmethanes in which all three arene cores can be decorated with differential functional substitutions on demand. Since the cyclization/coupling of alkenyl aldimines is unknown to date, the current method widens the scope with regard to both the substrate and product diversity for this class of reaction.
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Affiliation(s)
- Rishi R Sapkota
- Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802, United States
| | - Raj Kumar Tak
- Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802, United States
| | - Vivek Aryal
- Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802, United States
| | - Doleshwar Niroula
- Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802, United States
| | - Nicholas C Secosky
- Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802, United States
| | - Roshan K Dhungana
- Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802, United States
| | - Ramesh Giri
- Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802, United States
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6
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Xiong B, Si L, Liu Y, Xu W, Jiang T, Cao F, Tang KW, Wong WY. Metal-free, Phosphoric Acid-catalyzed Regioselective 1,6-Hydroarylation of para-Quinone Methides with Indoles in Water. Chem Asian J 2022; 17:e202200042. [PMID: 35246930 DOI: 10.1002/asia.202200042] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2022] [Revised: 02/19/2022] [Indexed: 11/08/2022]
Abstract
An efficient, cheap and green protocol for the highly regioselective 1,6-hydroarylation of para -quinone methides ( p -QMs) with indoles at the C-3 position has been established by phosphoric acid catalysis in water under the transition-metal-free reaction conditions. A wide range of indole derivatives and para -quinone methides ( p -QMs) are compatible for the reaction, affording the corresponding 1,6-hydroarylation products with good to excellent yields. The possible mechanism of the reaction has been explored by step-by-step control experiments. The protocol is convenient for practical application, leading a safe, green and feasible way for the formation of C-3 diarylmethyl functionalized indole derivatives.
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Affiliation(s)
- Biquan Xiong
- Hunan Institute of Science and Technology, Department of Chemistry and Chemical Engineering, Xueyuan Road, 414006, Yueyang, CHINA
| | - Lulu Si
- Hunan Institute of Science and Technology, Department of Chemistry and Chemical Engineering, Xueyuan Road, 414006, Yueyang, CHINA
| | - Yu Liu
- Hunan Institute of Science and Technology, Department of Chemistry and Chemical Engineering, Xueyuan Road, 414006, Yueyang, CHINA
| | - Weifeng Xu
- Hunan Institute of Science and Technology, Department of Chemistry and Chemical Engineering, Xueyuan Road, 414006, Yueyang, CHINA
| | - Tao Jiang
- Hunan Institute of Science and Technology, Department of Chemistry and Chemical Engineering, Xueyuan Road, 414006, Yueyang, CHINA
| | - Fan Cao
- Hunan Institute of Science and Technology, Department of Chemistry and Chemical Engineering, Xueyuan Road, 414006, Yueyang, CHINA
| | - Ke-Wen Tang
- Hunan Institute of Science and Technology, Department of Chemistry and Chemical Engineering, Xueyuan Road, 414006, Yueyang, CHINA
| | - Wai-Yeung Wong
- The Hong Kong Polytechnic University, Department of Applied Biology and Chemical Technology, Hung Hom, Hong Kong, HONG KONG
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7
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Kyndiah L, Sarkar FK, Gupta A, Pal AK. Efficient metal-free green syntheses of 4 H-chromenes and 3-amino alkylated indoles using a reusable graphite oxide carbocatalyst under aqueous and solvent-free reaction conditions. NEW J CHEM 2022. [DOI: 10.1039/d2nj00756h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Graphite oxide was employed as a reusable catalyst for the synthesis of 4H-chromenes and 3-amino alkylated indoles in aqueous and solvent-free reaction conditions.
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Affiliation(s)
- Lenida Kyndiah
- Department of Chemistry, Centre for Advanced Studies, North-Eastern Hill University, Shillong-793022, Meghalaya, India
| | - Fillip Kumar Sarkar
- Department of Chemistry, Centre for Advanced Studies, North-Eastern Hill University, Shillong-793022, Meghalaya, India
| | - Ajay Gupta
- Department of Chemistry, Centre for Advanced Studies, North-Eastern Hill University, Shillong-793022, Meghalaya, India
| | - Amarta Kumar Pal
- Department of Chemistry, Centre for Advanced Studies, North-Eastern Hill University, Shillong-793022, Meghalaya, India
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Patel M, Desai B, Sheth A, Dholakiya BZ, Naveen T. Recent Advances in Mono‐ and Difunctionalization of Unactivated Olefins. ASIAN J ORG CHEM 2021. [DOI: 10.1002/ajoc.202100666] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Monak Patel
- Department of Chemistry Sardar Vallabhbhai National Institute of Technology Gujarat–Surat 395 007 India
| | - Bhargav Desai
- Department of Chemistry Sardar Vallabhbhai National Institute of Technology Gujarat–Surat 395 007 India
| | - Aakash Sheth
- Department of Chemistry Sardar Vallabhbhai National Institute of Technology Gujarat–Surat 395 007 India
| | - Bharatkumar Z. Dholakiya
- Department of Chemistry Sardar Vallabhbhai National Institute of Technology Gujarat–Surat 395 007 India
| | - Togati Naveen
- Department of Chemistry Sardar Vallabhbhai National Institute of Technology Gujarat–Surat 395 007 India
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Verma M, Thakur A, Sharma R, Bharti R. Recent Advancement in the One-Pot Synthesis of the Tri-Substituted Methanes (TRSMs) and Their Biological Applications. Curr Org Synth 2021; 19:86-114. [PMID: 34515005 DOI: 10.2174/1570179418666210910105342] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2021] [Revised: 07/08/2021] [Accepted: 07/19/2021] [Indexed: 11/22/2022]
Abstract
The history of tri-substituted methanes (TRSMs) in chemical industries is much older. Tri-substituted methanes were previously used as dyes in the chemical industries. Still, there is a significant surge in researchers' interest in them due to their wide range of bioactivities. Tri-substituted methane derivatives show a wide range of biological activities like anti-tumor, antimicrobial, antibiofilm, antioxidant, anti-inflammatory, anti-arthritic activities. Due to the wide range of medicinal applications shown by tri-substituted methanes, most of the methodologies reported in the literature for the synthesis of TRSMs are focused on the one-pot method. This review explored the recently reported one-pot processes for synthesizing tri-substituted methanes and their various medicinal applications. Based on the substitution attached to the -CH carbon, this review categorizes them into two major classes: (I) symmetrical and (II) unsymmetrical trisubstituted methanes. In addition, this review gives an insight into the growing opportunities for the construction of trisubstituted scaffolds via one-pot methodologies. To the best of our knowledge, no one has yet reported a review on the one-pot synthesis of TRSMs. Therefore, here we present a brief literature review of the synthesis of both symmetrical and unsymmetrical TRSMs covering various one-pot methodologies along with their medicinal applications.
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Affiliation(s)
- Monika Verma
- Department of chemistry, University Institute of sciences, Chandigarh University, Ludhiana Highway, Mohali, Punjab . India
| | - Ajay Thakur
- Department of chemistry, University Institute of sciences, Chandigarh University, Ludhiana Highway, Mohali, Punjab . India
| | - Renu Sharma
- Department of chemistry, University Institute of sciences, Chandigarh University, Ludhiana Highway, Mohali, Punjab . India
| | - Ruchi Bharti
- Department of chemistry, University Institute of sciences, Chandigarh University, Ludhiana Highway, Mohali, Punjab . India
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10
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Zhang Y, Lin Z, Ackermann L. Electrochemical C-H Amidation of Heteroarenes with N-Alkyl Sulfonamides in Aqueous Medium. Chemistry 2020; 27:242-246. [PMID: 33085807 PMCID: PMC7898600 DOI: 10.1002/chem.202004229] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2020] [Revised: 10/20/2020] [Indexed: 12/12/2022]
Abstract
The construction of C-N bonds by free radical reactions represents a powerful synthetic approach for direct C-H amidations of arenes or heteroarenes. Developing efficient and more environmentally friendly synthetic methods for C-H amidation reactions remains highly desirable. Herein, metal-free electrochemical oxidative dehydrogenative C-H amidations of heteroarenes with N-alkylsulfonamides have been accomplished. The catalyst- and chemical-oxidant-free C-H amidation features an ample scope and employs electricity as the green and sole oxidant. A variety of heteroarenes, including indoles, pyrroles, benzofuran and benzothiophene, thereby underwent this C(sp2 )-H nitrogenation. Cyclic voltammetry studies and control experiments provided evidence for nitrogen-centered radicals being directly generated under metal-free electrocatalysis.
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Affiliation(s)
- Yan Zhang
- Institut für Organische und Biomolekulare Chemie, Georg-August-Universität Göttingen, Tammannstrasse 2, 37077, Göttingen, Germany.,Key Laboratory of the Ministry of Education for Advanced, Catalysis Materials, Zhejiang Normal University, Yingbin Road 688, 321004, Jinhua, P. R. China
| | - Zhipeng Lin
- Institut für Organische und Biomolekulare Chemie, Georg-August-Universität Göttingen, Tammannstrasse 2, 37077, Göttingen, Germany
| | - Lutz Ackermann
- Institut für Organische und Biomolekulare Chemie, Georg-August-Universität Göttingen, Tammannstrasse 2, 37077, Göttingen, Germany
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11
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Lans I, Palacio-Rodríguez K, Cavasotto CN, Cossio P. Flexi-pharma: a molecule-ranking strategy for virtual screening using pharmacophores from ligand-free conformational ensembles. J Comput Aided Mol Des 2020; 34:1063-1077. [PMID: 32656619 PMCID: PMC7449997 DOI: 10.1007/s10822-020-00329-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2020] [Accepted: 06/27/2020] [Indexed: 01/27/2023]
Abstract
Computer-aided strategies are useful for reducing the costs and increasing the success-rate in drug discovery. Among these strategies, methods based on pharmacophores (an ensemble of electronic and steric features representing the target active site) are efficient to implement over large compound libraries. However, traditional pharmacophore-based methods require knowledge of active compounds or ligand-receptor structures, and only few ones account for target flexibility. Here, we developed a pharmacophore-based virtual screening protocol, Flexi-pharma, that overcomes these limitations. The protocol uses molecular dynamics (MD) simulations to explore receptor flexibility, and performs a pharmacophore-based virtual screening over a set of MD conformations without requiring prior knowledge about known ligands or ligand-receptor structures for building the pharmacophores. The results from the different receptor conformations are combined using a "voting" approach, where a vote is given to each molecule that matches at least one pharmacophore from each MD conformation. Contrarily to other approaches that reduce the pharmacophore ensemble to some representative models and score according to the matching models or molecule conformers, the Flexi-pharma approach takes directly into account the receptor flexibility by scoring in regards to the receptor conformations. We tested the method over twenty systems, finding an enrichment of the dataset for 19 of them. Flexi-pharma is computationally efficient allowing for the screening of thousands of compounds in minutes on a single CPU core. Moreover, the ranking of molecules by vote is a general strategy that can be applied with any pharmacophore-filtering program.
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Affiliation(s)
- Isaias Lans
- Biophysics of Tropical Diseases Max Planck Tandem Group, University of Antioquia UdeA, Calle 70 No. 52-21, Medellín, Colombia
| | - Karen Palacio-Rodríguez
- Biophysics of Tropical Diseases Max Planck Tandem Group, University of Antioquia UdeA, Calle 70 No. 52-21, Medellín, Colombia
| | - Claudio N Cavasotto
- Computational Drug Design and Biomedical Informatics Laboratory, Translational Medicine Research Institute (IIMT), CONICET-Universidad Austral, Pilar, Buenos Aires, Argentina
- Facultad de Ciencias Biomédicas, and Facultad de Ingeniería, Universidad Austral, Pilar, Buenos Aires, Argentina
- Austral Institute for Applied Artificial Intelligence, Universidad Austral, Pilar, Buenos Aires, Argentina
| | - Pilar Cossio
- Biophysics of Tropical Diseases Max Planck Tandem Group, University of Antioquia UdeA, Calle 70 No. 52-21, Medellín, Colombia.
- Department of Theoretical Biophysics, Max Planck Institute of Biophysics, 60438, Frankfurt am Main, Germany.
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12
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Garkoti C, Shabir J, Mozumdar S. Amine‐Terminated Ionic Liquid Modified Magnetic Graphene Oxide (MGO‐IL‐NH
2
): A Highly Efficient and Reusable Nanocatalyst for the Synthesis of 3‐Amino Alkylated Indoles. ChemistrySelect 2020. [DOI: 10.1002/slct.202000336] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Charu Garkoti
- Department of ChemistryUniversity of Delhi Delhi India - 110007
| | - Javaid Shabir
- Department of ChemistryUniversity of Delhi Delhi India - 110007
| | - Subho Mozumdar
- Department of ChemistryUniversity of Delhi Delhi India - 110007
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13
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Cheruku S, Nagaraju C, Shetty P, Hassan A S, Nagarakere C S, Manikyanally N K, Kempegowda M. An efficient synthesis of medicinally important indole based triarylmethanes by using propylphosphonic anhydride (T3P ®). SYNTHETIC COMMUN 2020. [DOI: 10.1080/00397911.2020.1743319] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Affiliation(s)
- Srinivas Cheruku
- Department of Studies in Chemistry, Yuvaraja’s College, University of Mysore, Mysuru, India
| | - Chaithra Nagaraju
- Synthetic Laboratory, DOS in Chemistry, University of Mysore, Mysuru, India
| | - Poornima Shetty
- Department of Chemistry, Srinivas School of Engineering, Mangalore, India
| | - Swarup Hassan A
- Synthetic Laboratory, DOS in Chemistry, University of Mysore, Mysuru, India
| | | | - Kumara Manikyanally N
- Department of Studies in Chemistry, Yuvaraja’s College, University of Mysore, Mysuru, India
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14
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Recent Advances on the C2-Functionalization of Indole via Umpolung. Top Curr Chem (Cham) 2020; 378:22. [DOI: 10.1007/s41061-020-0287-7] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2019] [Accepted: 01/28/2020] [Indexed: 01/23/2023]
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Chaudhuri A, Hudait N, Chakraborty SS. Pharmacophore modeling coupled with molecular dynamic simulation approach to identify new leads for meprin-β metalloprotease. Comput Biol Chem 2019; 80:292-306. [PMID: 31054542 DOI: 10.1016/j.compbiolchem.2019.04.014] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2019] [Revised: 04/23/2019] [Accepted: 04/26/2019] [Indexed: 11/26/2022]
Abstract
Human meprin beta metalloprotease, a small subgroup of the astacin family, is a potent drug target for the treatment of several disorders such as fibrosis, neurodegenerative disease in particular Alzheimer and inflammatory bowel diseases. In this study, a ligand-based pharmacophore approach has been used for the selection of potentially active compounds to understand the inhibitory activities of meprin-β by using the sulfonamide scaffold based inhibitors. Using this dataset, a pharmacophore model (Hypo1) was selected on the basis of a highest correlation coefficient (0.959), lowest total cost (105.89) and lowest root mean square deviation (1.31 Å) values. All the pharmacophore hypotheses generated from the candidate inhibitors comprised four features: two hydrogen-bond acceptor, one hydrogen-bond donor and one zinc binder feature. The best validated pharmacophore model (Hypo1) was used for virtual screening of compounds from several databases. The selective hit compounds were filtered by drug likeness property, acceptable ADMET profile, molecular docking and DFT study. Molecular dynamic simulations with the final 10 hit compounds revealed that a large number of non-covalent interactions were formed with the active site and specificity sub-pockets of the meprin beta metalloprotease. This study assists in the development of the new lead molecules as well as gives a better understanding of their interaction with meprin-β.
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Affiliation(s)
- Ankur Chaudhuri
- Department of Microbiology, West Bengal State University, Barasat, Berunanpukuria, P.O. Malikapur, North 24 Parganas, Kolkata, 700126, West Bengal, India
| | - Nandagopal Hudait
- Department of Microbiology, West Bengal State University, Barasat, Berunanpukuria, P.O. Malikapur, North 24 Parganas, Kolkata, 700126, West Bengal, India; Department of Chemistry, West Bengal State University, Barasat, Berunanpukuria, P.O. Malikapur, North 24 Parganas, Kolkata, 700126, West Bengal, India
| | - Sibani Sen Chakraborty
- Department of Microbiology, West Bengal State University, Barasat, Berunanpukuria, P.O. Malikapur, North 24 Parganas, Kolkata, 700126, West Bengal, India.
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16
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Structure Based Design and Molecular Docking Studies for Phosphorylated Tau Inhibitors in Alzheimer's Disease. Cells 2019; 8:cells8030260. [PMID: 30893872 PMCID: PMC6468864 DOI: 10.3390/cells8030260] [Citation(s) in RCA: 43] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2019] [Revised: 03/09/2019] [Accepted: 03/14/2019] [Indexed: 12/20/2022] Open
Abstract
The purpose of our study is to identify phosphorylated tau (p-tau) inhibitors. P-tau has recently received great interest as a potential drug target in Alzheimer’s disease (AD). The continuous failure of Aβ-targeted therapeutics recommends an alternative drug target to treat AD. There is increasing evidence and growing awareness of tau, which plays a central role in AD pathophysiology, including tangles formation, abnormal activation of phosphatases/kinases, leading p-tau aggregation in AD neurons. In the present study, we performed computational pharmacophore models, molecular docking, and simulation studies for p-tau in order to identify hyperphosphorylated sites. We found multiple serine sites that altered the R1/R2 repeats flanking sequences in the tau protein, affecting the microtubule binding ability of tau. The ligand molecules exhibited the p-O ester scaffolds with inhibitory and/or blocking actions against serine residues of p-tau. Our molecular docking results revealed five ligands that showed high docking scores and optimal protein-ligand interactions of p-tau. These five ligands showed the best pharmacokinetic and physicochemical properties, including good absorption, distribution, metabolism, and excretion (ADME) and admetSAR toxicity tests. The p-tau pharmacophore based drug discovery models provide the comprehensive and rapid drug interventions in AD, and tauopathies are expected to be the prospective future therapeutic approach in AD.
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17
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Dankhoff K, Ahmad A, Weber B, Biersack B, Schobert R. Anticancer properties of a new non-oxido vanadium(IV) complex with a catechol-modified 3,3'-diindolylmethane ligand. J Inorg Biochem 2019; 194:1-6. [PMID: 30784705 DOI: 10.1016/j.jinorgbio.2019.02.005] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2019] [Revised: 02/05/2019] [Accepted: 02/08/2019] [Indexed: 01/16/2023]
Abstract
In order to identify new active drug candidates against cancer diseases we investigated the tumor cell growth inhibition, formation of reactive oxygen species, mitochondrial membrane damage, cell cycle arrest and DNA binding activity of a new bis(triethylammonium) tris[1,1-bis(indol-3-yl)-1-(3,4-catecholate)methane]vanadate(IV) complex. It exhibited significant antiproliferative activity against various cancer cell lines, showed a stronger DNA binding than cisplatin and led to mitochondrial damage, a formation of reactive oxygen species, and a cell cycle arrest in the G2/M phase of cancer cells.
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Affiliation(s)
- Katja Dankhoff
- Inorganic Chemistry IV, University of Bayreuth, Universitaetsstrasse 30, 95447 Bayreuth, Germany
| | - Aamir Ahmad
- USA Mitchell Cancer Institute, 1660 Springhill Avenue, Mobile, AL 36604-1405, USA
| | - Birgit Weber
- Inorganic Chemistry IV, University of Bayreuth, Universitaetsstrasse 30, 95447 Bayreuth, Germany
| | - Bernhard Biersack
- Organic Chemistry Laboratory, University of Bayreuth, Universitaetsstrasse 30, 95447 Bayreuth, Germany.
| | - Rainer Schobert
- Organic Chemistry Laboratory, University of Bayreuth, Universitaetsstrasse 30, 95447 Bayreuth, Germany
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19
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20
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Huang RZ, Jin L, Yao GY, Dai WL, Huang XC, Liao ZX, Wang HS. Synthesis and molecular docking study of novel alizarin derivatives containing phosphoryl amino acid moiety as potential antitumor agents. Med Chem Res 2017. [DOI: 10.1007/s00044-017-1938-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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21
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Saini R, Dharavath N, Eligeti R, Malladi SR. Synthesis, Characterization, and Anti-inflammatory Activity of Novel Isoxazolyl-4-(2-oxo-2,3-dihydro-1H
-3-indolyl)pyrrole-3-carboxylates. J Heterocycl Chem 2017. [DOI: 10.1002/jhet.2888] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Ramakrishna Saini
- Department of Chemistry; Kakatiya University; Warangal 506 009 TS India
| | - Nagaraju Dharavath
- Department of Chemistry; Telangana University; Nizamabad 503 322 TS India
| | | | - Srinivas Reddy Malladi
- Department of Pharmaceutical Chemistry; Vaageswari College of Pharmacy, JNTU-Hyderabad; Thimmapur Karimnagar 505 527 TS India
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22
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23
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Omidi M, Amrollahi MA. Facile synthesis of 3-substituted indoles containing highly polarized double bonds. CR CHIM 2017. [DOI: 10.1016/j.crci.2016.09.004] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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24
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Perricone U, Wieder M, Seidel T, Langer T, Padova A, Almerico AM, Tutone M. A Molecular Dynamics-Shared Pharmacophore Approach to Boost Early-Enrichment Virtual Screening: A Case Study on Peroxisome Proliferator-Activated Receptor α. ChemMedChem 2017; 12:1399-1407. [PMID: 28135036 DOI: 10.1002/cmdc.201600526] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2016] [Revised: 01/26/2017] [Indexed: 12/21/2022]
Abstract
Molecular dynamics (MD) simulations can be used, prior to virtual screening, to add flexibility to proteins and study them in a dynamic way. Furthermore, the use of multiple crystal structures of the same protein containing different co-crystallized ligands can help elucidate the role of the ligand on a protein's active conformation, and then explore the most common interactions between small molecules and the receptor. In this work, we evaluated the contribution of the combined use of MD on crystal structures containing the same protein but different ligands to examine the crucial ligand-protein interactions within the complexes. The study was carried out on peroxisome proliferator-activated receptor α (PPARα). Findings derived from the dynamic analysis of interactions were then used as features for pharmacophore generation and constraints for generating the docking grid for use in virtual screening. We found that information derived from short multiple MD simulations using different molecules within the binding pocket of the target can improve the early enrichment of active ligands in the virtual screening process for this receptor. In the end we adopted a consensus scoring based on docking score and pharmacophore alignment to rank our dataset. Our results showed an improvement in virtual screening performance in early recognition when screening was performed with the Molecular dYnamics SHAred PharmacophorE (MYSHAPE) approach.
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Affiliation(s)
- Ugo Perricone
- Dipartimento di Scienze e Tecnologie Biologiche Chimiche e Farmaceutiche (STEBICEF), Università di Palermo, Via Archirafi 32, 90123, Palermo, Italy.,Department of Pharmaceutical Chemistry, Faculty of Life Sciences, University of Vienna, Althanstraße 14, 1090, Vienna, Austria.,Fondazione Ri.MED, Via Bandiera 11, 90133, Palermo, Italy
| | - Marcus Wieder
- Department of Pharmaceutical Chemistry, Faculty of Life Sciences, University of Vienna, Althanstraße 14, 1090, Vienna, Austria.,Department of Computational Biological Chemistry, Faculty of Chemistry, University of Vienna, Währinger Straße 42, 1090, Vienna, Austria
| | - Thomas Seidel
- Department of Pharmaceutical Chemistry, Faculty of Life Sciences, University of Vienna, Althanstraße 14, 1090, Vienna, Austria
| | - Thierry Langer
- Department of Pharmaceutical Chemistry, Faculty of Life Sciences, University of Vienna, Althanstraße 14, 1090, Vienna, Austria
| | | | - Anna Maria Almerico
- Dipartimento di Scienze e Tecnologie Biologiche Chimiche e Farmaceutiche (STEBICEF), Università di Palermo, Via Archirafi 32, 90123, Palermo, Italy
| | - Marco Tutone
- Dipartimento di Scienze e Tecnologie Biologiche Chimiche e Farmaceutiche (STEBICEF), Università di Palermo, Via Archirafi 32, 90123, Palermo, Italy
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25
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Wu B, Tang J, Wilson DJ, Huber AD, Casey MC, Ji J, Kankanala J, Xie J, Sarafianos SG, Wang Z. 3-Hydroxypyrimidine-2,4-dione-5-N-benzylcarboxamides Potently Inhibit HIV-1 Integrase and RNase H. J Med Chem 2016; 59:6136-48. [PMID: 27283261 DOI: 10.1021/acs.jmedchem.6b00040] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Resistance selection by human immunodeficiency virus (HIV) toward known drug regimens necessitates the discovery of structurally novel antivirals with a distinct resistance profile. On the basis of our previously reported 3-hydroxypyrimidine-2,4-dione (HPD) core, we have designed and synthesized a new integrase strand transfer (INST) inhibitor type featuring a 5-N-benzylcarboxamide moiety. Significantly, the 6-alkylamino variant of this new chemotype consistently conferred low nanomolar inhibitory activity against HIV-1. Extended antiviral testing against a few raltegravir-resistant HIV-1 clones revealed a resistance profile similar to that of the second generation INST inhibitor (INSTI) dolutegravir. Although biochemical testing and molecular modeling also strongly corroborate the inhibition of INST as the antiviral mechanism of action, selected antiviral analogues also potently inhibited reverse transcriptase (RT) associated RNase H, implying potential dual target inhibition. In vitro ADME assays demonstrated that this novel chemotype possesses largely favorable physicochemical properties suitable for further development.
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Affiliation(s)
- Bulan Wu
- Center for Drug Design, Academic Health Center, University of Minnesota , Minneapolis, Minnesota 55455, United States
| | - Jing Tang
- Center for Drug Design, Academic Health Center, University of Minnesota , Minneapolis, Minnesota 55455, United States
| | - Daniel J Wilson
- Center for Drug Design, Academic Health Center, University of Minnesota , Minneapolis, Minnesota 55455, United States
| | - Andrew D Huber
- Department of Molecular Microbiology and Immunology and Department of Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri , Columbia, Missouri 65211, United States
| | - Mary C Casey
- Department of Molecular Microbiology and Immunology and Department of Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri , Columbia, Missouri 65211, United States
| | - Juan Ji
- Department of Molecular Microbiology and Immunology and Department of Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri , Columbia, Missouri 65211, United States
| | - Jayakanth Kankanala
- Center for Drug Design, Academic Health Center, University of Minnesota , Minneapolis, Minnesota 55455, United States
| | - Jiashu Xie
- Center for Drug Design, Academic Health Center, University of Minnesota , Minneapolis, Minnesota 55455, United States
| | - Stefan G Sarafianos
- Department of Molecular Microbiology and Immunology and Department of Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri , Columbia, Missouri 65211, United States
| | - Zhengqiang Wang
- Center for Drug Design, Academic Health Center, University of Minnesota , Minneapolis, Minnesota 55455, United States
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26
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Naidu PS, Majumder S, Bhuyan PJ. Iodine-catalyzed sp³ C-H bond activation by selenium dioxide: synthesis of diindolylmethanes and di(3-indolyl)selanides. Mol Divers 2015; 19:685-93. [PMID: 26016723 DOI: 10.1007/s11030-015-9605-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2014] [Accepted: 05/16/2015] [Indexed: 11/26/2022]
Abstract
An efficient reaction protocol was developed for the synthesis of several diindolylmethane derivatives via the [Formula: see text] C-H bond activation of aryl methyl ketones by [Formula: see text] and indoles in the presence of catalytic amounts of [Formula: see text] at 80 [Formula: see text] using dioxane as solvent. Unexpectedly, an interesting class of di(3-indolyl)selenide compounds was isolated when the reaction was carried out at room temperature.
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Affiliation(s)
- P Seetham Naidu
- Medicinal Chemistry Division, CSIR-North East Institute of Science & Technology, Jorhat, 785006, Assam, India
| | - Swarup Majumder
- Medicinal Chemistry Division, CSIR-North East Institute of Science & Technology, Jorhat, 785006, Assam, India
| | - Pulak J Bhuyan
- Medicinal Chemistry Division, CSIR-North East Institute of Science & Technology, Jorhat, 785006, Assam, India.
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27
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Shinde VV, Jeong YT. A green and convenient protocol for the synthesis of diarylmethanes via a one-pot, three-component reaction catalyzed by a novel silica tungstic acid (STA) under solvent-free conditions. CR CHIM 2015. [DOI: 10.1016/j.crci.2014.05.010] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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28
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Goswami SV, Thorat PB, Shukla MV, Bhusare SR. 3-Chlorophenylboronic acid-promoted, one-pot, aza-Friedel–Crafts reaction of indoles. RESEARCH ON CHEMICAL INTERMEDIATES 2015. [DOI: 10.1007/s11164-013-1370-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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29
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Rajesh UC, Kholiya R, Thakur A, Rawat DS. [TBA][Gly] ionic liquid promoted multi-component synthesis of 3-substituted indoles and indolyl-4H-chromenes. Tetrahedron Lett 2015. [DOI: 10.1016/j.tetlet.2015.02.058] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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30
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An efficient solvent free multicomponent synthesis of functionalized 4H-chromenes by using reusable, heterogeneous Amberlite IRA-400 Cl resin as catalyst. Tetrahedron Lett 2015. [DOI: 10.1016/j.tetlet.2014.11.043] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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31
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Shankar J, Satish G, Kumar BSPA, Nageswar YVD. β-Cyclodextrin catalyzed synthesis of substituted indoles in aqueous medium. ACTA ACUST UNITED AC 2014. [DOI: 10.5155/eurjchem.5.4.668-670.1085] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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32
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Li Y, Xuan S, Feng Y, Yan A. Targeting HIV-1 integrase with strand transfer inhibitors. Drug Discov Today 2014; 20:435-49. [PMID: 25486307 DOI: 10.1016/j.drudis.2014.12.001] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2014] [Revised: 11/14/2014] [Accepted: 12/01/2014] [Indexed: 01/03/2023]
Abstract
HIV-1 integrase (IN) is a retroviral enzyme essential for integration of genetic material into the DNA of the host cell and hence for viral replication. The absence of an equivalent enzyme in humans makes IN an interesting target for anti-HIV drug design. This review briefly overviews the structural and functional properties of HIV-1 IN. We analyze the binding modes of the established drugs, clinical candidates and a comprehensive library of leads based on innovative chemical scaffolds of HIV-1 IN strand transfer inhibitors (INSTIs). Computational clustering techniques are applied for identifying structural features relating to bioactivity. From bio- and chemo-informatics analyses, we provide novel insights into structure-activity relationships of INSTIs and elaborate new strategies for design of innovative inhibitors.
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Affiliation(s)
- Yang Li
- State Key Laboratory of Chemical Resource Engineering, Department of Pharmaceutical Engineering, Beijing University of Chemical Technology, 15 BeiSanHuan East Road, P.O. Box 53, Beijing 100029, PR China
| | - Shouyi Xuan
- State Key Laboratory of Chemical Resource Engineering, Department of Pharmaceutical Engineering, Beijing University of Chemical Technology, 15 BeiSanHuan East Road, P.O. Box 53, Beijing 100029, PR China
| | - Yue Feng
- Beijing Key Lab of Bioprocess, College of Life Science and Technology, Beijing University of Chemical Technology, 15 BeiSanHuan East Road, P.O. Box 53, Beijing 100029, PR China
| | - Aixia Yan
- State Key Laboratory of Chemical Resource Engineering, Department of Pharmaceutical Engineering, Beijing University of Chemical Technology, 15 BeiSanHuan East Road, P.O. Box 53, Beijing 100029, PR China.
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33
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Kong Y, Xuan S, Yan A. Computational models on quantitative prediction of bioactivity of HIV-1 integrase 3' processing inhibitors. SAR AND QSAR IN ENVIRONMENTAL RESEARCH 2014; 25:729-746. [PMID: 25121566 DOI: 10.1080/1062936x.2014.942695] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
In this study, four computational quantitative structure-activity relationship (QSAR) models were built to predict the bioactivity of 3' processing (3'P) inhibitors of HIV-1 integrase. Some 453 inhibitors whose bioactivity values were detected by the radiolabelling method were collected. The molecular structures were represented with MOE descriptors. In total, 21 descriptors were selected for modelling. All inhibitors were divided into a training set and a test set with two methods: (1) by a Kohonen's self-organizing map (SOM); (2) by a random selection. For every training set and test set, a multilinear regression (MLR) analysis and a support vector machine (SVM) were used to establish models, respectively. For the training/test set divided by SOM, the correlation coefficients (r) were over 0.84, and for the training/test set split randomly, the r values were over 0.86. Some molecular properties such as hydrogen bond donor capacity, atomic partial charge properties, molecular refractivity, the number of aromatic bonds and molecular surface area, volume and shape properties played important roles for inhibiting 3' processing step of HIV-1 integrase.
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Affiliation(s)
- Y Kong
- a State Key Laboratory of Chemical Resource Engineering, Department of Pharmaceutical Engineering , Beijing University of Chemical Technology , Beijing , China
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34
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Synthesis and antitumor activities of novel α-aminophosphonate derivatives containing an alizarin moiety. Eur J Med Chem 2014; 83:116-28. [DOI: 10.1016/j.ejmech.2014.02.067] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2013] [Revised: 02/19/2014] [Accepted: 02/19/2014] [Indexed: 02/07/2023]
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35
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36
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Synthesis, Cytotoxicity, DNA Binding, and Apoptosis of Alizarin 2-O-Side-Chain Derivatives. Chem Nat Compd 2014. [DOI: 10.1007/s10600-014-0922-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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37
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Mousavizadeh F, Hekmatshoar R, Beheshtiha SYS, Rahnamafar R. Highly Selective One-Pot Coupling Reaction of Indole, Aromatic Aldehydes, and 4-hydroxycoumarin Using Copper Octoate as a Homogeneous Catalyst. SYNTHETIC COMMUN 2014. [DOI: 10.1080/00397911.2013.862723] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Affiliation(s)
- Farnoush Mousavizadeh
- a Department of Chemistry, School of Science , Alzahra University , Vanak , Tehran , Iran
| | - Rahim Hekmatshoar
- a Department of Chemistry, School of Science , Alzahra University , Vanak , Tehran , Iran
| | | | - Reyhaneh Rahnamafar
- a Department of Chemistry, School of Science , Alzahra University , Vanak , Tehran , Iran
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38
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Brahmachari G, Das S. One-Pot Synthesis of 3-[(N-Alkylanilino)(aryl)methyl]indoles via a Transition Metal Assisted Three-Component Condensation at Room Temperature. J Heterocycl Chem 2014. [DOI: 10.1002/jhet.1909] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Goutam Brahmachari
- Department of Chemistry; Visva-Bharati University; Santiniketan 731 235 West Bengal India
| | - Suvankar Das
- Department of Chemistry; Visva-Bharati University; Santiniketan 731 235 West Bengal India
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39
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Rajesh UC, Kholiya R, Satya Pavan V, Rawat DS. Catalyst-free, ethylene glycol promoted one-pot three component synthesis of 3-amino alkylated indoles via Mannich-type reaction. Tetrahedron Lett 2014. [DOI: 10.1016/j.tetlet.2014.03.112] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
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40
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Ghorbani-Vaghei R, Shahbazi H, Toghraei-Semiromi Z. Solid-state synthesis of novel 3-substituted indoles. CR CHIM 2014. [DOI: 10.1016/j.crci.2013.02.001] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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41
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Wang Y, Yuan Y, Xing CH, Lu L. Trifluoromethanesulfonic acid-catalyzed solvent-free bisindolylation of trifluoromethyl ketones. Tetrahedron Lett 2014. [DOI: 10.1016/j.tetlet.2013.12.078] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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42
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Xu L, Zhou S, Yu K, Gao B, Jiang H, Zhen X, Fu W. Molecular modeling of the 3D structure of 5-HT(1A)R: discovery of novel 5-HT(1A)R agonists via dynamic pharmacophore-based virtual screening. J Chem Inf Model 2013; 53:3202-11. [PMID: 24245825 DOI: 10.1021/ci400481p] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The serotonin receptor subtype 1A (5-HT(1A)R) has been implicated in several neurological conditions, and potent 5-HT(1A)R agonists have therapeutic potential for the treatment of depression, anxiety, schizophrenia, and Parkinson's disease. In the present study, a homology model of 5-HT(1A)R was built based on the latest released high-resolution crystal structure of the β₂AR in its active state (PDB: 3SN6). A dynamic pharmacophore model, which takes the receptor flexibility into account, was constructed, validated, and applied to our dynamic pharmacophore-based virtual screening approach with the aim to identify potential 5-5-HT(1A)R agonists. The obtained hits were subjected to 55-HT(1A)R binding and functional assays, and 10 compounds with medium or high K(i) and EC₅₀ values were identified. Among them, FW01 (K(i) = 51.9 nM, EC₅₀ = 7 nM) was evaluated as the strongest agonist for 5-HT(1A)R. The active 5-HT(1A)R model and dynamic pharmacophore model obtained from this study can be used for future discovery and design of novel 5-HT(1A)R agonists. Also, by integrating all computational and available experimental data, a stepwise 5-HT(1A)R signal transduction model induced by agonist FW01 was proposed.
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Affiliation(s)
- Lili Xu
- Department of Medicinal Chemistry & Key Laboratory of Smart Drug Delivery, Ministry of Education, School of Pharmacy, Fudan University , Shanghai 201203, China
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43
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Xuan S, Wang M, Kang H, Kirchmair J, Tan L, Yan A. Support Vector Machine (SVM) Models for Predicting Inhibitors of the 3′ Processing Step of HIV-1 Integrase. Mol Inform 2013; 32:811-26. [DOI: 10.1002/minf.201300107] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2013] [Accepted: 07/26/2013] [Indexed: 01/24/2023]
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44
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Organocatalytic asymmetric Michael addition of 2-naphthols to alkylideneindolenines generated in situ from arenesulfonylalkylindoles. Tetrahedron Lett 2013. [DOI: 10.1016/j.tetlet.2013.05.011] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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45
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Xuan S, Wu Y, Chen X, Liu J, Yan A. Prediction of bioactivity of HIV-1 integrase ST inhibitors by multilinear regression analysis and support vector machine. Bioorg Med Chem Lett 2013; 23:1648-55. [PMID: 23395655 DOI: 10.1016/j.bmcl.2013.01.081] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2012] [Revised: 01/05/2013] [Accepted: 01/17/2013] [Indexed: 10/27/2022]
Abstract
In this study, four computational quantitative structure-activity relationship models were built to predict the biological activity of HIV-1 integrase strand transfer (ST) inhibitors. 551 Inhibitors whose bioactivities were detected by radiolabeling method were collected. The molecules were represented with 20 selected MOE descriptors. All inhibitors were divided into a training set and a test set with two methods: (1) by a Kohonen's self-organizing map (SOM); (2) by a random selection. For every training set and test set, a multilinear regression (MLR) analysis and a support vector machine (SVM) were used to establish models, respectively. For the test set divided by SOM, the correlation coefficients (rs) were over 0.91, and for the test set split randomly, the rs were over 0.86.
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Affiliation(s)
- Shouyi Xuan
- State Key Laboratory of Chemical Resource Engineering, Department of Pharmaceutical Engineering, PO Box 53, Beijing University of Chemical Technology, 15 BeiSanHuan East Road, Beijing 100029, PR China
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46
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Das B, Kumar JN, Kumar AS, Satyalakshmi G, Shinde DB. A distinct novel approach for the synthesis of 3-indolyl-methanamines starting from indoles, aldehydes and nitrobenzenes in water. RSC Adv 2013. [DOI: 10.1039/c3ra41131a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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47
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Devi CL, Rao VJ, Palaniappan S. PANI-HBF4: A Reusable Polymer-Based Solid Acid Catalyst for Three-Component, One-Pot Synthesis of 3-Substituted Amino Methyl Indoles Under Solvent-Free Conditions. SYNTHETIC COMMUN 2012. [DOI: 10.1080/00397911.2010.542535] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
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48
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Chitra S, Paul N, Muthusubramanian S, Manisankar P. Solvent based selectivity in the synthesis of di(2-aryl-1H-3-indolyl) sulfides and 1-aryl-2-[(2-aryl-1H-3-indolyl)sulfanyl]-1-ethanones. RSC Adv 2012. [DOI: 10.1039/c1ra00878a] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
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49
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Serafin K, Mazur P, Bak A, Laine E, Tchertanov L, Mouscadet JF, Polanski J. Ethyl malonate amides: A diketo acid offspring fragment for HIV integrase inhibition. Bioorg Med Chem 2011; 19:5000-5. [DOI: 10.1016/j.bmc.2011.06.054] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2011] [Revised: 06/16/2011] [Accepted: 06/18/2011] [Indexed: 12/24/2022]
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50
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Tang J, Maddali K, Metifiot M, Sham YY, Vince R, Pommier Y, Wang Z. 3-Hydroxypyrimidine-2,4-diones as an inhibitor scaffold of HIV integrase. J Med Chem 2011; 54:2282-92. [PMID: 21381765 DOI: 10.1021/jm1014378] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Integrase (IN) represents a clinically validated target for the development of antivirals against human immunodeficiency virus (HIV). Inhibitors with a novel structure core are essential for combating resistance associated with known IN inhibitors (INIs). We have previously disclosed a novel dual inhibitor scaffold of HIV IN and reverse transcriptase (RT). Here we report the complete structure-activity relationship (SAR), molecular modeling, and resistance profile of this inhibitor type on IN inhibition. These studies support an antiviral mechanism of dual inhibition against both IN and RT and validate 3-hydroxypyrimidine-2,4-diones as an IN inhibitor scaffold.
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Affiliation(s)
- Jing Tang
- Center for Drug Design, Academic Health Center, University of Minnesota, Minneapolis, Minnesota 55455, United States
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