1
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Rinehart NI, Saunthwal RK, Wellauer J, Zahrt AF, Schlemper L, Shved AS, Bigler R, Fantasia S, Denmark SE. A machine-learning tool to predict substrate-adaptive conditions for Pd-catalyzed C-N couplings. Science 2023; 381:965-972. [PMID: 37651532 DOI: 10.1126/science.adg2114] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2022] [Accepted: 08/01/2023] [Indexed: 09/02/2023]
Abstract
Machine-learning methods have great potential to accelerate the identification of reaction conditions for chemical transformations. A tool that gives substrate-adaptive conditions for palladium (Pd)-catalyzed carbon-nitrogen (C-N) couplings is presented. The design and construction of this tool required the generation of an experimental dataset that explores a diverse network of reactant pairings across a set of reaction conditions. A large scope of C-N couplings was actively learned by neural network models by using a systematic process to design experiments. The models showed good performance in experimental validation: Ten products were isolated in more than 85% yield from a range of couplings with out-of-sample reactants designed to challenge the models. Importantly, the developed workflow continually improves the prediction capability of the tool as the corpus of data grows.
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Affiliation(s)
- N Ian Rinehart
- Roger Adams Laboratory, Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Rakesh K Saunthwal
- Roger Adams Laboratory, Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Joël Wellauer
- Pharmaceutical Division, Synthetic Molecules Technical Development, Process Chemistry and Catalysis, F. Hoffmann-La Roche, Ltd., Basel, Switzerland
| | - Andrew F Zahrt
- Roger Adams Laboratory, Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Lukas Schlemper
- Pharmaceutical Division, Synthetic Molecules Technical Development, Process Chemistry and Catalysis, F. Hoffmann-La Roche, Ltd., Basel, Switzerland
| | - Alexander S Shved
- Roger Adams Laboratory, Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Raphael Bigler
- Pharmaceutical Division, Synthetic Molecules Technical Development, Process Chemistry and Catalysis, F. Hoffmann-La Roche, Ltd., Basel, Switzerland
| | - Serena Fantasia
- Pharmaceutical Division, Synthetic Molecules Technical Development, Process Chemistry and Catalysis, F. Hoffmann-La Roche, Ltd., Basel, Switzerland
| | - Scott E Denmark
- Roger Adams Laboratory, Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
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2
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Emadi R, Bahrami Nekoo A, Molaverdi F, Khorsandi Z, Sheibani R, Sadeghi-Aliabadi H. Applications of palladium-catalyzed C-N cross-coupling reactions in pharmaceutical compounds. RSC Adv 2023; 13:18715-18733. [PMID: 37346956 PMCID: PMC10280806 DOI: 10.1039/d2ra07412e] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2022] [Accepted: 05/17/2023] [Indexed: 06/23/2023] Open
Abstract
C-N cross-coupling bond formation reactions have become valuable approaches to synthesizing anilines and their derivatives, known as important chemical compounds. Recent developments in this field have focused on versatile catalysts, simple operation methods, and green reaction conditions. This review article presents an overview of C-N cross-coupling reactions in pharmaceutical compound synthesis reports. Selected examples of N-arylation reactions of various nitrogen-based compounds and aryl halides are defined for preparing pharmaceutical molecules.
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Affiliation(s)
- Reza Emadi
- Department of Biochemistry, Institute of Biochemistry & Biophysics (IBB), University of Tehran Tehran Iran
| | - Abbas Bahrami Nekoo
- Nanoalvand Pharmaceutical Company, Department of Quality Control, Unit of Raw Materials Simindasht Alborz Iran
| | - Fatemeh Molaverdi
- Department of Organic Chemistry, School of Chemistry, College of Science, Tehran University Tehran Islamic Republic of Iran
| | - Zahra Khorsandi
- Pharmaceutical Sciences Research Center, School of Pharmacy and Pharmaceutical Sciences, Isfahan University of Medical Sciences Isfahan 81746-73461 Iran
| | - Reza Sheibani
- Amirkabir University of Technology-Mahshahr Campus University St., Nahiyeh san'ati Mahshahr Khouzestan Iran
| | - Hojjat Sadeghi-Aliabadi
- Pharmaceutical Sciences Research Center, School of Pharmacy and Pharmaceutical Sciences, Isfahan University of Medical Sciences Isfahan 81746-73461 Iran
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3
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Sepehrmansourie H, Kalhor S, Zarei M, Zolfigol MA, Hosseinifard M. A convenient catalytic method for preparation of new tetrahydropyrido[2,3- d]pyrimidines via a cooperative vinylogous anomeric based oxidation. RSC Adv 2022; 12:34282-34292. [PMID: 36545580 PMCID: PMC9709663 DOI: 10.1039/d2ra05655k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2022] [Accepted: 11/21/2022] [Indexed: 12/02/2022] Open
Abstract
In this study, a novel functionalized metal-organic frameworks MIL-125(Ti)-N(CH2PO3H2)2 was designed and synthesized via post-modification methodology. Then, MIL-125(Ti)-N(CH2PO3H2)2 as a mesoporous catalyst was applied for the synthesis of a wide range of novel tetrahydropyrido[2,3-d]pyrimidines as bioactive candidate compounds by one-pot condensation reaction of 3-(1-methyl-1H-pyrrol-2-yl)-3-oxopropanenitrile, 6-amino-1,3-dimethylpyrimidine-2,4(1H,3H)-dione and aromatic aldehydes at 100 °C under solvent-free condition. Interestingly, the preparation of tetrahydropyrido[2,3-d]pyrimidine was achieved via vinylogous anomeric based oxidation mechanism with a high yield and short reaction time.
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Affiliation(s)
- Hassan Sepehrmansourie
- Department of Organic Chemistry, Faculty of Chemistry, Bu-Ali Sina UniversityHamedan 6517838683Iran+988138380709+988138282807
| | - Sima Kalhor
- Department of Organic Chemistry, Faculty of Chemistry, Bu-Ali Sina UniversityHamedan 6517838683Iran+988138380709+988138282807
| | - Mahmoud Zarei
- Department of Chemistry, Faculty of Science, University of QomQom37185-359Iran
| | - Mohammad Ali Zolfigol
- Department of Organic Chemistry, Faculty of Chemistry, Bu-Ali Sina UniversityHamedan 6517838683Iran+988138380709+988138282807
| | - Mojtaba Hosseinifard
- Department of Energy, Materials and Energy Research CenterP.O. Box 31787-316KarajIran
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4
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Horbaczewskyj CS, Fairlamb IJS. Pd-Catalyzed Cross-Couplings: On the Importance of the Catalyst Quantity Descriptors, mol % and ppm. Org Process Res Dev 2022; 26:2240-2269. [PMID: 36032362 PMCID: PMC9396667 DOI: 10.1021/acs.oprd.2c00051] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2022] [Indexed: 12/26/2022]
Abstract
![]()
This Review examines parts per million (ppm) palladium
concentrations
in catalytic cross-coupling reactions and their relationship with
mole percentage (mol %). Most studies in catalytic cross-coupling
chemistry have historically focused on the concentration ratio between
(pre)catalyst and the limiting reagent (substrate), expressed as mol
%. Several recent papers have outlined the use of “ppm level”
palladium as an alternative means of describing catalytic cross-coupling
reaction systems. This led us to delve deeper into the literature
to assess whether “ppm level” palladium is a practically
useful descriptor of catalyst quantities in palladium-catalyzed cross-coupling
reactions. Indeed, we conjectured that many reactions could, unknowingly,
have employed low “ppm levels” of palladium (pre)catalyst,
and generally, what would the spread of ppm palladium look like across
a selection of studies reported across the vast array of the cross-coupling
chemistry literature. In a few selected examples, we have examined
other metal catalyst systems for comparison with palladium.
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Affiliation(s)
| | - Ian J. S. Fairlamb
- University of York, Heslington, York, North Yorkshire, YO10 5DD, United Kingdom
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5
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Venkatesh E, Narsimha S, Kumar NS, Reddy NV. One Pot Synthesis and Antitumor Activity of Isoxazole-Pyrimido[4,5-c]isoquinolines. RUSS J GEN CHEM+ 2021. [DOI: 10.1134/s1070363220120361] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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6
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Bhuyan AJ, Bhuyan P, Boruah B, Saikia L. Magnetically recoverable copper ferrite catalyzed cascade synthesis of 1,3‐dimethyl‐6‐nitro‐5‐arylpyrido[2,3‐
d
]pyrimidine‐2,4(1
H
,3
H
)‐diones under microwave irradiation and solvent‐less condition. Appl Organomet Chem 2020. [DOI: 10.1002/aoc.6091] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Amar Jyoti Bhuyan
- Department of Chemistry Rajiv Gandhi University (A Central University) Doimukh India
| | - Pubanita Bhuyan
- Department of Chemistry Rajiv Gandhi University (A Central University) Doimukh India
| | - Bornali Boruah
- Department of Chemistry Assam Down Town University Guwahati India
| | - Lakhinath Saikia
- Department of Chemistry Rajiv Gandhi University (A Central University) Doimukh India
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7
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Yadav P, Shah K. An overview on synthetic and pharmaceutical prospective of pyrido[2,3-d]pyrimidines scaffold. Chem Biol Drug Des 2020; 97:633-648. [PMID: 32946161 DOI: 10.1111/cbdd.13800] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2020] [Revised: 08/30/2020] [Accepted: 09/03/2020] [Indexed: 12/26/2022]
Abstract
Pyrido[2,3-d]pyrimidine, a fused hetero-bicyclic nucleus containing pyridine and pyrimidine rings has attained the momentary attention in the sphere of multicomponent synthetic protocol and medicinal chemist. Pyrido[2,3-d]pyrimidine derived drugs have manifested diverse pharmacological activities, particularly, anti-inflammatory, cytotoxic, antimicrobial, phosphodiesterase inhibitors and cytokine inhibitors etc. The present review illustrates various modern synthetic strategies adopted, the structure-activity relationship (SAR) aspects and discloses the extensive crucial biological properties (anticancer, anti-infectious, anti-diabetics and CNS agents) of pyrido[2,3-d]pyrimidines.
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Affiliation(s)
- Pratibha Yadav
- Institute of Pharmaceutical Research, GLA University, Mathura, UP, India
| | - Kamal Shah
- Institute of Pharmaceutical Research, GLA University, Mathura, UP, India
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8
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Thomas GT, Janusson E, Zijlstra HS, McIndoe JS. Step-by-step real time monitoring of a catalytic amination reaction. Chem Commun (Camb) 2019; 55:11727-11730. [PMID: 31512685 DOI: 10.1039/c9cc05076k] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
The multiple reaction monitoring mode of a triple quadrupole mass spectrometer is used to examine the Buchwald-Hartwig amination reaction at 0.1% catalyst loading in real-time using sequential addition of reagents to probe the individual steps in the cycle. This is a powerful new method for probing reactions under realistic conditions.
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Affiliation(s)
- Gilian T Thomas
- Department of Chemistry, University of Victoria, PO Box 1700 STN CSC, Victoria, BC V8W 2Y2, Canada. E-mail:
| | - Eric Janusson
- Department of Chemistry, University of Victoria, PO Box 1700 STN CSC, Victoria, BC V8W 2Y2, Canada. E-mail:
| | - Harmen S Zijlstra
- Department of Chemistry, University of Victoria, PO Box 1700 STN CSC, Victoria, BC V8W 2Y2, Canada. E-mail:
| | - J Scott McIndoe
- Department of Chemistry, University of Victoria, PO Box 1700 STN CSC, Victoria, BC V8W 2Y2, Canada. E-mail:
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9
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Shah K, Queener S, Cody V, Pace J, Gangjee A. Development of substituted pyrido[3,2-d]pyrimidines as potent and selective dihydrofolate reductase inhibitors for pneumocystis pneumonia infection. Bioorg Med Chem Lett 2019; 29:1874-1880. [PMID: 31176699 DOI: 10.1016/j.bmcl.2019.06.004] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2019] [Revised: 05/28/2019] [Accepted: 06/01/2019] [Indexed: 10/26/2022]
Abstract
Pneumocystis pneumonia (PCP) caused by Pneumocystis jirovecii (pj) can lead to serious health consequences in patients with an immunocompromised system. Trimethoprim (TMP), used as first-line therapy in combination with sulfamethoxazole, is a selective but only moderately potent pj dihydrofolate reductase (pjDHFR) inhibitor, whereas non-clinical pjDHFR inhibitors, such as, piritrexim and trimetrexate are potent but non-selective pjDHFR inhibitors. To meet the clinical needs for a potent and selective pjDHFR inhibitor for PCP treatment, fourteen 6-substituted pyrido[3,2-d]pyrimidines were developed. Comparison of the amino acid residues in the active site of pjDHFR and human DHFR (hDHFR) revealed prominent amino acid differences which could be exploited to structurally design potent and selective pjDHFR inhibitors. Molecular modeling followed by enzyme assays of the compounds revealed 15 as the best compound of the series with an IC50 of 80 nM and 28-fold selectivity for inhibiting pjDHFR over hDHFR. Compound 15 serves as the lead analog for further structural variations to afford more potent and selective pjDHFR inhibitors.
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Affiliation(s)
- Khushbu Shah
- Division of Medicinal Chemistry, Graduate School of Pharmaceutical Sciences, Duquesne University, Pittsburgh PA 15282, United States
| | - Sherry Queener
- Department of Pharmacology and Toxicology, Indiana University School of Medicine, Indianapolis, IN 46202, United States
| | - Vivian Cody
- Hauptman-Woodward Medical Research Institute, 700 Ellicott Street, Buffalo, NY 14203, United States
| | - Jim Pace
- Hauptman-Woodward Medical Research Institute, 700 Ellicott Street, Buffalo, NY 14203, United States
| | - Aleem Gangjee
- Division of Medicinal Chemistry, Graduate School of Pharmaceutical Sciences, Duquesne University, Pittsburgh PA 15282, United States.
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10
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Ingoglia BT, Wagen CC, Buchwald SL. Biaryl Monophosphine Ligands in Palladium-Catalyzed C-N Coupling: An Updated User's Guide. Tetrahedron 2019; 75:4199-4211. [PMID: 31896889 DOI: 10.1016/j.tet.2019.05.003] [Citation(s) in RCA: 127] [Impact Index Per Article: 25.4] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
Over the past three decades, Pd-catalyzed cross-coupling reactions have become a mainstay of organic synthesis. In particular, catalysts derived from biaryl monophosphines have shown wide utility in forming C-N bonds under mild reaction conditions. This work summarizes a variety of C-N cross-coupling reactions using biaryl monophosphines as supporting ligands, with the goal of directing synthetic chemists towards the ligands and conditions best suited for a particular coupling.
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Affiliation(s)
- Bryan T Ingoglia
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, United States
| | - Corin C Wagen
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, United States
| | - Stephen L Buchwald
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, United States
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11
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Zinchenko AM, Muzychka LV, Kucher OV, Sadkova IV, Mykhailiuk PK, Smolii OB. One-Pot Synthesis of 6-Aminopyrido[2,3- d]pyrimidin-7-ones. European J Org Chem 2018. [DOI: 10.1002/ejoc.201801204] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Affiliation(s)
- Anna M. Zinchenko
- Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine; Murmanska 1 02094 Kyiv Ukraine
| | - Lyubov V. Muzychka
- Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine; Murmanska 1 02094 Kyiv Ukraine
| | - Olexandr V. Kucher
- Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine; Murmanska 1 02094 Kyiv Ukraine
| | | | - Pavel K. Mykhailiuk
- Enamine Ltd.; Chervonotkatska 78 01103 Kyiv Ukraine
- Chemistry Department; Taras Shevchenko National University of Kyiv; Volodymyrska 64 01601 Kyiv Ukraine
| | - Oleg B. Smolii
- Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine; Murmanska 1 02094 Kyiv Ukraine
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12
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Indole-substituted 2,4-diamino-5,8-dihydropyrido[2,3-d]pyrimidines from one-pot process and evaluation of their ability to bind dopamine receptors. Tetrahedron 2018. [DOI: 10.1016/j.tet.2018.10.038] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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13
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Sun YQ, Zong CY, Ji JY, Han Q. Efficient and library-friendly synthesis of 4-N-substituted 6-bromopyrido[2,3-d]pyrimidines under microwave irradiation. CHEMICAL PAPERS 2018. [DOI: 10.1007/s11696-018-0498-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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14
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Binding of methimazole and NADP(H) to human FMO3: In vitro and in silico studies. Int J Biol Macromol 2018; 118:460-468. [PMID: 29959003 DOI: 10.1016/j.ijbiomac.2018.06.104] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2018] [Revised: 06/06/2018] [Accepted: 06/22/2018] [Indexed: 01/10/2023]
Abstract
Human flavin-containing monooxygenase isoform 3 (hFMO3) is an important hepatic drug-metabolizing enzyme, catalyzing the monooxygenation of nucleophilic heteroatom-containing xenobiotics. Based on the structure of bacterial FMO, it is proposed that a conserved asparagine is involved in both NADP(H) and substrate binding. In order to explore the role of this amino acid in hFMO3, two mutants were constructed. In the case of N61Q, increasing the steric hindrance above the flavin N5-C4a causes poor NADP(H) binding, destabilizing the catalytic FAD intermediate, whereas the introduction of a negatively charged residue, N61D, interferes mainly with catalytic intermediate formation and its stability. To better understand the substrate-enzyme interaction, in vitro as well as in silico experiments were carried out with methimazole as substrate. Methimazole is a high-affinity substrate of hFMO3 and can competitively suppress the metabolism of other compounds. Our results demonstrate that methimazole Pi-stacks above the isoalloxazine ring of FAD in hFMO3, in a similar way to indole binding to the bacterial FMO. However, for hFMO3 indole is found to act as a non-substrate competitive inhibitor. Finally, understanding the binding mode of methimazole and indole could be advantageous for development of hFMO3 inhibitors, currently investigated as a possible treatment strategy for atherosclerosis.
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15
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Shah K, Lin X, Queener SF, Cody V, Pace J, Gangjee A. Targeting species specific amino acid residues: Design, synthesis and biological evaluation of 6-substituted pyrrolo[2,3-d]pyrimidines as dihydrofolate reductase inhibitors and potential anti-opportunistic infection agents. Bioorg Med Chem 2018; 26:2640-2650. [PMID: 29691153 DOI: 10.1016/j.bmc.2018.04.032] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2018] [Revised: 04/04/2018] [Accepted: 04/14/2018] [Indexed: 11/28/2022]
Abstract
To combine the potency of trimetrexate (TMQ) or piritrexim (PTX) with the species selectivity of trimethoprim (TMP), target based design was carried out with the X-ray crystal structure of human dihydrofolate reductase (hDHFR) and the homology model of Pneumocystis jirovecii DHFR (pjDHFR). Using variation of amino acids such as Met33/Phe31 (in pjDHFR/hDHFR) that affect the binding of inhibitors due to their distinct positive or negative steric effect at the active binding site of the inhibitor, we designed a series of substituted-pyrrolo[2,3-d]pyrimidines. The best analogs displayed better potency (IC50) than PTX and high selectivity for pjDHFR versus hDHFR, with 4 exhibiting a selectivity for pjDHFR of 24-fold.
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Affiliation(s)
- Khushbu Shah
- Division of Medicinal Chemistry, Graduate School of Pharmaceutical Sciences, Duquesne University, Pittsburgh, PA 15282, United States
| | - Xin Lin
- Division of Medicinal Chemistry, Graduate School of Pharmaceutical Sciences, Duquesne University, Pittsburgh, PA 15282, United States
| | - Sherry F Queener
- Department of Pharmacology and Toxicology, Indiana University School of Medicine, Indianapolis, IN 46202, United States
| | - Vivian Cody
- Hauptman-Woodward Medical Research Institute, 700 Ellicott Street, Buffalo, NY 14203, United States
| | - Jim Pace
- Hauptman-Woodward Medical Research Institute, 700 Ellicott Street, Buffalo, NY 14203, United States
| | - Aleem Gangjee
- Division of Medicinal Chemistry, Graduate School of Pharmaceutical Sciences, Duquesne University, Pittsburgh, PA 15282, United States.
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16
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Narsimha S, Battula KS, Nagavelli VR. One-pot synthesis of novel 1,2,3-triazole-pyrimido[4,5-c]isoquinoline hybrids and evaluation of their antioxidant activity. SYNTHETIC COMMUN 2018. [DOI: 10.1080/00397911.2018.1440315] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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17
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Ameri A, Khodarahmi G, Forootanfar H, Hassanzadeh F, Hakimelahi GH. Hybrid Pharmacophore Design, Molecular Docking, Synthesis, and Biological Evaluation of Novel Aldimine-Type Schiff
Base Derivatives as Tubulin Polymerization Inhibitor. Chem Biodivers 2018; 15:e1700518. [DOI: 10.1002/cbdv.201700518] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2017] [Accepted: 12/29/2017] [Indexed: 01/11/2023]
Affiliation(s)
- Alieh Ameri
- Department of Medicinal Chemistry; Faculty of Pharmacy; Kerman University of Medical Sciences; Kerman Iran
| | - Ghadamali Khodarahmi
- Department of Medicinal Chemistry; Faculty of Pharmacy; Isfahan University of Medical Sciences; Isfahan Iran
| | - Hamid Forootanfar
- Department of Pharmaceutical Biotechnology; Faculty of Pharmacy; Kerman University of Medical Sciences; Kerman Iran
| | - Farshid Hassanzadeh
- Department of Medicinal Chemistry; Faculty of Pharmacy; Isfahan University of Medical Sciences; Isfahan Iran
| | - Gholam-Hosein Hakimelahi
- Department of Medicinal Chemistry; Faculty of Pharmacy; Isfahan University of Medical Sciences; Isfahan Iran
- Institute of Chemistry; Academia Sinica; Nankang Taipei Taiwan
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18
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Bhosle MR, Khillare LD, Mali JR, Sarkate AP, Lokwani DK, Tiwari SV. DIPEAc promoted one-pot synthesis of dihydropyrido[2,3-d:6,5-d′]dipyrimidinetetraone and pyrimido[4,5-d]pyrimidine derivatives as potent tyrosinase inhibitors and anticancer agents: in vitro screening, molecular docking and ADMET predictions. NEW J CHEM 2018. [DOI: 10.1039/c8nj04622k] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Efficient and rapid synthesis of 18 tyrosinase inhibitors with good to moderate anticancer activity and good oral drug like properties.
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Affiliation(s)
- Manisha R. Bhosle
- Department of Chemistry
- Dr Babasaheb Ambedkar Marathwada University
- Aurangabad 431004
- India
| | - Lalit D. Khillare
- Department of Chemistry
- Dr Babasaheb Ambedkar Marathwada University
- Aurangabad 431004
- India
| | - Jyotirling R. Mali
- College of Pharmacy
- Dongguk University-Seoul
- Goyang-10326
- Republic of Korea
| | - Aniket P. Sarkate
- Department of Chemical Technology
- Dr Babasaheb Ambedkar Marathwada University
- Aurangabad-431004
- India
| | - Deepak K. Lokwani
- R. C. Patel Institute of Pharmaceutical Education & Research
- Shirpur-425405
- India
| | - Shailee V. Tiwari
- Department of Pharmaceutical Chemistry
- Durgamata Institute of Pharmacy
- Parbhani-431401
- India
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19
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Javahershenas R, Khalafy J. A Green Synthesis of 7-amino-5-(4-aroyl)-1,3-dimethyl-2,4-dioxo-1,2,3,4,5,8-hexahydropyrido[2,3-d
]pyrimidine-6-carbonitrile Derivatives by a One-pot Three-component Reaction. J Heterocycl Chem 2017. [DOI: 10.1002/jhet.2930] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
| | - Jabbar Khalafy
- Department of Chemistry; Urmia University; 5756151818 Urmia Iran
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20
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Guo P, Huang S, Mo J, Chen X, Jiang H, Chen W, Cai H, Zhan H. Au-catalyzed domino process synthesis of imidazo[1,2-a]pyridines from 2-aminopyridine and N-tosylhydrazones: An efficient C N bond formation reaction. CATAL COMMUN 2017. [DOI: 10.1016/j.catcom.2016.10.033] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022] Open
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21
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Wang M, Yang J, Yuan M, Xue L, Li H, Tian C, Wang X, Liu J, Zhang Z. Synthesis and antiproliferative activity of a series of novel 6-substituted pyrido[3,2-d]pyrimidines as potential nonclassical lipophilic antifolates targeting dihydrofolate reductase. Eur J Med Chem 2017; 128:88-97. [PMID: 28152430 DOI: 10.1016/j.ejmech.2017.01.033] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2016] [Revised: 01/20/2017] [Accepted: 01/21/2017] [Indexed: 10/20/2022]
Abstract
Dihydrofolate reductase (DHFR) has been a well-recognized target for the treatment of many diseases. Based on 8,10-dideazaminopterins, which are classical antifolates that potently inhibit DHFR, we have designed a series of novel 2,4-diamino-6-substituted pyrido[3,2-d]pyrimidines. By removing the glutamate moiety and introducing lipophilic groups, we hoped to improve passive diffuse through the cell membranes. The target compounds were efficiently synthesized using one-pot procedure and evaluated in vitro for DHFR inhibition and antitumor activity. Compounds 5e, 5h, 5i and 5k were the most potent inhibitors of recombinant human DHFR (rhDHFR) with IC50 values in the range 0.2-1.0 μM. Analysis using flow cytometric indicated that the effect of compound 5k on cell cycle progression was linked to induction of S phase arrest. Compounds 5g, 5h, 5i and 5k showed broad spectrum antitumor activity against four different tumor cell lines, with IC50 values in the range 0.07-23 μM. Molecular docking investigations showed that the trimethoyphenyl ring of compound 5k occupied a position near the cofactor-binding site in the rhDHFR-inhibitor complex, with close intermolecular contacts with Asp21, Phe31, Ser59, Ile60 and Pro61.
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Affiliation(s)
- Meng Wang
- Department of Chemical Biology, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
| | - Jiajia Yang
- Department of Chemical Biology, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
| | - Mengmeng Yuan
- Department of Chemical Biology, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
| | - Liangmin Xue
- Department of Chemical Biology, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
| | - Hao Li
- Department of Chemical Biology, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
| | - Chao Tian
- Department of Chemical Biology, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
| | - Xiaowei Wang
- Department of Chemical Biology, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
| | - Junyi Liu
- Department of Chemical Biology, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China; State Key Laboratory of Natural and Biomimetic Drugs, Peking University, Beijing 100191, China.
| | - Zhili Zhang
- Department of Chemical Biology, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China
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22
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Abstract
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Pd-catalyzed
cross-coupling reactions that form C–N bonds
have become useful methods to synthesize anilines and aniline derivatives,
an important class of compounds throughout chemical research. A key
factor in the widespread adoption of these methods has been the continued
development of reliable and versatile catalysts that function under
operationally simple, user-friendly conditions. This review provides
an overview of Pd-catalyzed N-arylation reactions found in both basic
and applied chemical research from 2008 to the present. Selected examples
of C–N cross-coupling reactions between nine classes of nitrogen-based
coupling partners and (pseudo)aryl halides are described for the synthesis
of heterocycles, medicinally relevant compounds, natural products,
organic materials, and catalysts.
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Affiliation(s)
- Paula Ruiz-Castillo
- Department of Chemistry, Massachusetts Institute of Technology , Cambridge, Massachusetts 02139, United States
| | - Stephen L Buchwald
- Department of Chemistry, Massachusetts Institute of Technology , Cambridge, Massachusetts 02139, United States
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23
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Nyíri K, Vértessy BG. Perturbation of genome integrity to fight pathogenic microorganisms. Biochim Biophys Acta Gen Subj 2016; 1861:3593-3612. [PMID: 27217086 DOI: 10.1016/j.bbagen.2016.05.024] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2016] [Revised: 05/05/2016] [Accepted: 05/18/2016] [Indexed: 10/21/2022]
Abstract
BACKGROUND Resistance against antibiotics is unfortunately still a major biomedical challenge for a wide range of pathogens responsible for potentially fatal diseases. SCOPE OF REVIEW In this study, we aim at providing a critical assessment of the recent advances in design and use of drugs targeting genome integrity by perturbation of thymidylate biosynthesis. MAJOR CONCLUSION We find that research efforts from several independent laboratories resulted in chemically highly distinct classes of inhibitors of key enzymes within the routes of thymidylate biosynthesis. The present article covers numerous studies describing perturbation of this metabolic pathway in some of the most challenging pathogens like Mycobacterium tuberculosis, Plasmodium falciparum, and Staphylococcus aureus. GENERAL SIGNIFICANCE Our comparative analysis allows a thorough summary of the current approaches to target thymidylate biosynthesis enzymes and also include an outlook suggesting novel ways of inhibitory strategies. This article is part of a Special Issue entitled "Science for Life" Guest Editor: Dr. Austen Angell, Dr. Salvatore Magazù and Dr. Federica Migliardo.
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Affiliation(s)
- Kinga Nyíri
- Dept. Biotechnology, Budapest University of Technology and Economics, 4 Szent Gellért tér, Budapest HU 1111, Hungary; Institute of Enzymology, RCNS, Hungarian Academy of Sciences, 2 Magyar tudósok körútja, Budapest HU 1117, Hungary.
| | - Beáta G Vértessy
- Dept. Biotechnology, Budapest University of Technology and Economics, 4 Szent Gellért tér, Budapest HU 1111, Hungary; Institute of Enzymology, RCNS, Hungarian Academy of Sciences, 2 Magyar tudósok körútja, Budapest HU 1117, Hungary.
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24
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Singh S, Saquib M, Singh M, Tiwari J, Tufail F, Singh J, Singh J. A catalyst free, multicomponent-tandem, facile synthesis of pyrido[2,3-d]pyrimidines using glycerol as a recyclable promoting medium. NEW J CHEM 2016. [DOI: 10.1039/c5nj01938a] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
An efficient and green, one-pot synthesis of pyrido[2,3-d]pyrimidines, a biologically important heterocyclic scaffold, using glycerol as a promoter cum solvent.
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Affiliation(s)
- Swastika Singh
- Environmentally Benign Synthesis Lab
- Department of Chemistry
- University of Allahabad
- Allahabad-211002
- India
| | - Mohammad Saquib
- Environmentally Benign Synthesis Lab
- Department of Chemistry
- University of Allahabad
- Allahabad-211002
- India
| | - Mandavi Singh
- Environmentally Benign Synthesis Lab
- Department of Chemistry
- University of Allahabad
- Allahabad-211002
- India
| | - Jyoti Tiwari
- Environmentally Benign Synthesis Lab
- Department of Chemistry
- University of Allahabad
- Allahabad-211002
- India
| | - Fatima Tufail
- Environmentally Benign Synthesis Lab
- Department of Chemistry
- University of Allahabad
- Allahabad-211002
- India
| | - Jaya Singh
- Department of Chemistry
- LRPG College
- Ghaziabad-201005
- India
| | - Jagdamba Singh
- Environmentally Benign Synthesis Lab
- Department of Chemistry
- University of Allahabad
- Allahabad-211002
- India
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25
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Zhang C, Sun G, Peng Q, Zhu S, Ni D. Synthesis and anti-proliferative activity evaluation of novel 1,4-naphthoquinones possessing pyrido[2,3-d]pyrimidine scaffolds. RSC Adv 2016. [DOI: 10.1039/c6ra17032c] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022] Open
Abstract
A series of novel 1,4-naphthoquinones possessing pyrido[2,3-d]pyrimidine scaffolds were synthesized and most of the compounds exhibited excellent anti-proliferative activities.
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Affiliation(s)
- Chong Zhang
- School of Pharmacy
- Xinxiang Medical University
- Xinxiang 453003
- China
| | - Guangfei Sun
- School of Pharmacy
- Xinxiang Medical University
- Xinxiang 453003
- China
| | - Qiujv Peng
- School of Pharmacy
- Xinxiang Medical University
- Xinxiang 453003
- China
| | - Shiwei Zhu
- School of Pharmacy
- Xinxiang Medical University
- Xinxiang 453003
- China
| | - Dongxuan Ni
- School of Pharmacy
- Xinxiang Medical University
- Xinxiang 453003
- China
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26
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OMAR WALAAAE, HORMI OSMOEO. Synthesis of Novel 5-(N-Substituted-Anilino)-8-Hydroxyquinolines via Hartwig-Buchwald Amination Reaction. J CHEM SCI 2015. [DOI: 10.1007/s12039-015-0960-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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27
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Facile synthesis of pyrido[2,3-d]pyrimidines via cyclocondensation of 4,6-dichloro-2-methylsulfanylpyrimidine-5-carbaldehyde with β-substituted β-aminoacrylic esters. Tetrahedron 2015. [DOI: 10.1016/j.tet.2015.06.085] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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28
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Cody V, Pace J, Namjoshi OA, Gangjee A. Structure-activity correlations for three pyrido[2,3-d]pyrimidine antifolates binding to human and Pneumocystis carinii dihydrofolate reductase. Acta Crystallogr F Struct Biol Commun 2015; 71:799-803. [PMID: 26057816 PMCID: PMC4461351 DOI: 10.1107/s2053230x15008468] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2015] [Accepted: 04/29/2015] [Indexed: 11/10/2022] Open
Abstract
To further define the interactions that enhance the selectivity of binding and to directly compare the binding of the most potent analogue {N(6)-methyl-N(6)-(3,4,5-trifluorophenyl)pyrido[2,3-d]pyrimidine-2,4,6-triamine; compound 26} in the series of bicyclic pyrido[2,3-d]pyrimidine analogues of piritrexim (PTX) with native human (h), Pneumocystis carinii (pc) and Pneumocystis jirovecii (pj) dihydrofolate reductase (DHFR) enzymes, the crystal structures of hDHFR complexed with N(6)-methyl-N(6)-(4-isopropylphenyl)pyrido[2,3-d]pyrimidine-2,4,6-triamine (compound 22), of hDHFR complexed with compound 26 and of pcDHFR complexed with N(6)-methyl-N(6)-1-naphthylpyrido[2,3-d]pyrimidine-2,4,6-triamine (compound 24) are reported as ternary complexes with NADPH. This series of bicyclic pyrido[2,3-d]pyrimidines were designed in which there was a transposition of the 5-methyl group of PTX to the N9 position of the pyrido[2,3-d]pyrimidine. It was hypothesized that the N9-methyl group would preferentially interact with Ile123 of pcDHFR (and Ile123 of pjDHFR), but not with the shorter Val115 in hDHFR. Structure-activity data for this series of antifolates revealed that a trifluoro derivative (26) was the most selective against pjDHFR compared with mammalian DHFR (h/pj = 35.7). Structural data for the hDHFR-26 complex revealed that 26 binds in a different conformation from that observed in the pcDHFR-26 complex. In the hDHFR-26 complex the trifluorophenyl ring of 26 occupies a position near the cofactor-binding site, with close intermolecular contacts with Asp21, Ser59 and Ile60, whereas this ring in the pcDHFR-26 complex is positioned away from the cofactor site and near Ile65, with weaker contacts with Ile65, Phe69 and Ile123. Comparison of the intermolecular contacts between the N9-methyl group with Val115/Ile123 validates the hypothesis that the N9-methyl substituent preferentially interacts with Ile123 compared with Val115 of hDHFR, as the weaker contact with Val115 in the hDHFR structure is consistent with its weaker binding affinity compared with pcDHFR. The results for the structures of hDHFR-22 and pcDHFR-24 show that their inhibitor-binding orientation is similar to that observed in pcDHFR-26 and the pcDHFR variant (F69N) reported previously. The naphthyl moiety of 24 makes several intermolecular contacts with the active-site residues in pcDHFR that help to stabilize the binding, resulting in a more potent inhibitor.
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Affiliation(s)
- Vivian Cody
- Structural Biology Department, Hauptman-Woodward Medical Research Institute, 700 Ellicott Street, Buffalo, NY 14203, USA
- Structural Biology Department, School of Medicine and Biomedical Sciences, University at Buffalo, 700 Ellicott Street, Buffalo, NY 14203, USA
| | - Jim Pace
- Structural Biology Department, Hauptman-Woodward Medical Research Institute, 700 Ellicott Street, Buffalo, NY 14203, USA
| | - Ojas A. Namjoshi
- Division of Medicinal Chemistry, Graduate School of Pharmaceutical Sciences, Duquesne University, Pittsburgh, PA 15213, USA
| | - Aleem Gangjee
- Division of Medicinal Chemistry, Graduate School of Pharmaceutical Sciences, Duquesne University, Pittsburgh, PA 15213, USA
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29
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Buron F, Mérour JY, Akssira M, Guillaumet G, Routier S. Recent advances in the chemistry and biology of pyridopyrimidines. Eur J Med Chem 2015; 95:76-95. [PMID: 25794791 DOI: 10.1016/j.ejmech.2015.03.029] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2014] [Revised: 02/19/2015] [Accepted: 03/13/2015] [Indexed: 11/17/2022]
Abstract
The interest in pyridopyrimidine cores for pharmaceutical products makes this scaffold a highly useful building block for organic chemistry. These derivatives have found applications in various areas of medicine such as anticancer, CNS, fungicidal, antiviral, anti-inflammatory, antimicrobial, and antibacterial therapies. This review mainly focuses on the progress achieved since 2004 in the chemistry and biological activity of pyridopyrimidines.
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Affiliation(s)
- F Buron
- Institut de Chimie Organique et Analytique, Université d'Orléans, UMR CNRS 7311, rue de Chartres, BP 6759, 45067 Orléans Cedex 2, France
| | - J Y Mérour
- Institut de Chimie Organique et Analytique, Université d'Orléans, UMR CNRS 7311, rue de Chartres, BP 6759, 45067 Orléans Cedex 2, France
| | - M Akssira
- Équipe de Chimie Bioorganique & Analytique, URAC 22, Université Hassan II Mohammedia-Casablanca, BP 146, 28800 Mohammedia, Morocco
| | - G Guillaumet
- Institut de Chimie Organique et Analytique, Université d'Orléans, UMR CNRS 7311, rue de Chartres, BP 6759, 45067 Orléans Cedex 2, France
| | - S Routier
- Institut de Chimie Organique et Analytique, Université d'Orléans, UMR CNRS 7311, rue de Chartres, BP 6759, 45067 Orléans Cedex 2, France.
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30
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Zhang S, Li X, Sun H. Selective amination of aryl chlorides catalysed by Ni(PMe3)4. Dalton Trans 2015; 44:16224-7. [DOI: 10.1039/c5dt02298c] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
C,N-coupling reactions of aryl chlorides and aryl amines catalyzed by a nickel catalyst are reported.
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Affiliation(s)
- Shumiao Zhang
- School of Chemistry and Chemical Engineering
- Key Laboratory of Special Functional Aggregated Materials
- Ministry of Education
- Shandong University
- 250199 Jinan
| | - Xiaoyan Li
- School of Chemistry and Chemical Engineering
- Key Laboratory of Special Functional Aggregated Materials
- Ministry of Education
- Shandong University
- 250199 Jinan
| | - Hongjian Sun
- School of Chemistry and Chemical Engineering
- Key Laboratory of Special Functional Aggregated Materials
- Ministry of Education
- Shandong University
- 250199 Jinan
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31
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Kobayashi K, Yuba S, Taniguchi A, Inouchi H, Hiyoshi H, Umezu K. Synthesis of 7-Amino-5,8-dihydropyrido[2,3-d]pyrimidine-6-carbonitrile Derivatives Based on the Reaction of 4-Chloro-5-lithio-6-methoxypyrimidines with 2-(Arylmethylidene)propanedinitriles. HETEROCYCLES 2014. [DOI: 10.3987/com-14-13091] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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32
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Heshmatpour F, Abazari R. Formation of dispersed palladium–nickel bimetallic nanoparticles in microemulsions: synthesis, characterization, and their use as efficient heterogeneous recyclable catalysts for the amination reactions of aryl chlorides under mild conditions. RSC Adv 2014. [DOI: 10.1039/c4ra06958g] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023] Open
Abstract
The amination cross-coupling reaction by Pd–Ni (1 : 1) bimetallic nanoparticles in water solvent.
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Affiliation(s)
- Felora Heshmatpour
- Department of Chemistry
- Faculty of Science
- K.N. Toosi University of Technology
- Tehran, Iran
| | - Reza Abazari
- Department of Chemistry
- Faculty of Science
- K.N. Toosi University of Technology
- Tehran, Iran
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