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Chovatia P, Sanzone A, Hofman GJ, Dooley R, Pezzati B, Trist IML, Ouvry G. Harnessing conformational drivers in drug design. PROGRESS IN MEDICINAL CHEMISTRY 2024; 63:1-60. [PMID: 39370240 DOI: 10.1016/bs.pmch.2024.07.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/08/2024]
Abstract
This review article explores the pivotal role of conformational drivers in the discovery of drug-like molecules and illustrates their significance through real-life examples. Understanding molecular conformation is paramount to drug hunting as it can impact on- and off-target potency, metabolism, permeability, and solubility. Each conformational driver or effector is described and exemplified in a separate section. The final section is dedicated to NMR spectroscopy and illustrates its utility as an essential tool for conformational design.
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Affiliation(s)
| | | | | | - Ruth Dooley
- Evotec (UK) Ltd, Milton Park, Abingdon, United Kingdom
| | | | | | - Gilles Ouvry
- NRG Therapeutics, Stevenage Bioscience Catalyst, Stevenage, United Kingdom
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2
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El-Wakil MH, El-Dershaby HA, Ghazallah RA, El-Yazbi AF, Abd El-Razik HA, Soliman FSG. Identification of new 5-(2,6-dichlorophenyl)-3-oxo-2,3-dihydro-5H-thiazolo[3,2-a]pyrimidine-7-carboxylic acids as p38α MAPK inhibitors: Design, synthesis, antitumor evaluation, molecular docking and in silico studies. Bioorg Chem 2024; 145:107226. [PMID: 38377818 DOI: 10.1016/j.bioorg.2024.107226] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2023] [Revised: 02/09/2024] [Accepted: 02/16/2024] [Indexed: 02/22/2024]
Abstract
In pursuit of discovering novel scaffolds that demonstrate potential inhibitory activity against p38α MAPK and possess strong antitumor effects, we herein report the design and synthesis of new series of 17 final target 5-(2,6-dichlorophenyl)-3-oxo-2,3-dihydro-5H-thiazolo[3,2-a]pyrimidine-7-carboxylic acids (4-20). Chemical characterization of the compounds was performed using FT-IR, NMR, elemental analyses and mass spectra of some representative examples. With many compounds showing potential inhibitory activity against p38α MAPK, two derivatives, 8 and 9, demonstrated the highest activity (>70 % inhibition) among the series. Derivative 9 displayed IC50 value nearly 2.5 folds more potent than 8. As anticipated, they both showed explicit interactions inside the kinase active site with the key binding amino acid residues. Screening both compounds for cytotoxic effects, they exhibited strong antitumor activities against lung (A549), breast (MCF-7 and MDA MB-231), colon (HCT-116) and liver (Hep-G2) cancers more potent than reference 5-FU. Their noticeable strong antitumor activity pointed out to the possibility of an augmented DNA binding mechanism of antitumor action besides their kinase inhibition. Both 8 and 9 exhibited strong ctDNA damaging effects in nanomolar range. Further mechanistic antitumor studies revealed ability of compounds 8 and 9 to arrest cell cycle in MCF-7 cells at S phase, while in HCT-116 treated cells at G0-G1 and G2/M phases. They also displayed apoptotic induction effects in both MCF-7 and HCT-116 with total cell deaths more than control untreated cells in reference to 5-FU. Finally, the compounds were tested for their anti-migratory potential utilizing wound healing assay. They induced a significant decrease in wound closure percentage after 24 h treatment in the examined cancer cells when compared to untreated control MCF-7 and HCT-116 cells better than 5-FU. In silico computation of physicochemical parameters revealed the drug-like properties of 8 and 9 with no violation to Lipinski's rule of five as well as their tolerable ADMET parameters, thus suggesting their utilization as potential future drug leads amenable for further optimization and development.
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Affiliation(s)
- Marwa H El-Wakil
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Alexandria University, Alexandria 21521, Egypt.
| | - Hadeel A El-Dershaby
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Alexandria University, Alexandria 21521, Egypt
| | - Rasha A Ghazallah
- Department of Medical Biochemistry, Faculty of Medicine, Alexandria University, Alexandria 21521, Egypt
| | - Amira F El-Yazbi
- Department of Pharmaceutical Analytical Chemistry, Faculty of Pharmacy, Alexandria University, Alexandria 21521, Egypt
| | - Heba A Abd El-Razik
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Alexandria University, Alexandria 21521, Egypt
| | - Farid S G Soliman
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Alexandria University, Alexandria 21521, Egypt
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3
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Mohanty M, Sahu G, Banerjee A, Lima S, Patra SA, Crochet A, Sciortino G, Sanna D, Ugone V, Garribba E, Dinda R. Mo(VI) Potential Metallodrugs: Explaining the Transport and Cytotoxicity by Chemical Transformations. Inorg Chem 2022; 61:4513-4532. [PMID: 35213131 DOI: 10.1021/acs.inorgchem.2c00113] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
The transport and cytotoxicity of molybdenum-based drugs have been explained with the concept of chemical transformation, a very important idea in inorganic medicinal chemistry that is often overlooked in the interpretation of the biological activity of metal-containing systems. Two monomeric, [MoO2(L1)(MeOH)] (1) and [MoO2(L2)(EtOH)] (2), and two mixed-ligand dimeric MoVIO2 species, [{MoO2(L1-2)}2(μ-4,4'-bipy)] (3-4), were synthesized and characterized. The structures of the solid complexes were solved through SC-XRD, while their transformation in water was clarified by UV-vis, ESI-MS, and DFT. In aqueous solution, 1-4 lead to the penta-coordinated [MoO2(L1-2)] active species after the release of the solvent molecule (1 and 2) or removal of the 4,4'-bipy bridge (3 and 4). [MoO2(L1-2)] are stable in solution and react with neither serum bioligand nor cellular reductants. The binding affinity of 1-4 toward HSA and DNA were evaluated through analytical and computational methods and in both cases a non-covalent interaction is expected. Furthermore, the in vitro cytotoxicity of the complexes was also determined and flow cytometry analysis showed the apoptotic death of the cancer cells. Interestingly, μ-4,4'-bipy bridged complexes 3 and 4 were found to be more active than monomeric 1 and 2, due to the mixture of species generated, that is [MoO2(L1-2)] and the cytotoxic 4,4'-bipy released after their dissociation. Since in the cytosol neither the reduction of MoVI to MoV/IV takes place nor the production of reactive oxygen species (ROS) through Fenton-like reactions of 1-4 with H2O2 occurs, the mechanism of cytotoxicity should be attributable to the direct interaction with DNA that happens with a minor-groove binding which results in cell death through an apoptotic mechanism.
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Affiliation(s)
- Monalisa Mohanty
- Department of Chemistry, National Institute of Technology, Rourkela 769008, Odisha, India
| | - Gurunath Sahu
- Department of Chemistry, National Institute of Technology, Rourkela 769008, Odisha, India
| | - Atanu Banerjee
- Department of Chemistry, National Institute of Technology, Rourkela 769008, Odisha, India
| | - Sudhir Lima
- Department of Chemistry, National Institute of Technology, Rourkela 769008, Odisha, India
| | - Sushree Aradhana Patra
- Department of Chemistry, National Institute of Technology, Rourkela 769008, Odisha, India
| | - Aurélien Crochet
- Department of Chemistry, Fribourg Center for Nanomaterials, University of Fribourg, CH-1700 Fribourg, Switzerland
| | - Giuseppe Sciortino
- Institute of Chemical Research of Catalonia (ICIQ), The Barcelona Institute of Science and Technology (BIST), 43007 Tarragona, Spain
| | - Daniele Sanna
- Istituto di Chimica Biomolecolare, Consiglio Nazionale delle Ricerche, Trav. La Crucca 3, I-07100 Sassari, Italy
| | - Valeria Ugone
- Istituto di Chimica Biomolecolare, Consiglio Nazionale delle Ricerche, Trav. La Crucca 3, I-07100 Sassari, Italy
| | - Eugenio Garribba
- Dipartimento di Scienze Mediche, Chirurgiche e Sperimentali, Università di Sassari, Viale San Pietro, I-07100 Sassari, Italy
| | - Rupam Dinda
- Department of Chemistry, National Institute of Technology, Rourkela 769008, Odisha, India
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4
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Patra SA, Mohanty M, Banerjee A, Kesarwani S, Henkel F, Reuter H, Dinda R. Protein binding and cytotoxic activities of monomeric and dimeric oxido-vanadium(V) salan complexes: Exploring the solution behavior of monoalkoxido-bound oxido-vanadium(V) complex. J Inorg Biochem 2021; 224:111582. [PMID: 34450411 DOI: 10.1016/j.jinorgbio.2021.111582] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2021] [Revised: 08/04/2021] [Accepted: 08/12/2021] [Indexed: 02/09/2023]
Abstract
Three ONNO donor tetradentate diamino bis(phenolato) "salan" ligands, N, N'-dimethyl-N, N'-bis-(5-chloro-2-hydroxy-3-methyl-benzyl)-1,2-diaminoethane (H2L1), N, N'-dimethyl-N, N'-bis-(5-chloro-2-hydroxy-3-isopropyl-6-methyl-benzyl)-1,2-diamino-ethane (H2L2) and N, N'-bis-(5-chloro-2-hydroxy-3-isopropyl-6-methyl-benzyl)-1,2-diaminocyclohexane (H2L3) have been synthesized by following Mannich condensation reaction. Reaction of these ligands with their corresponding vanadium metal precursors gave one oxidomethoxidovanadium(V) [VVOL1(OCH3)] (1) and two monooxido-bridged divanadium (V, V) complexes [VVOL2-3]2(μ-O) (2-3). The complexes were characterized by IR, UV-vis, NMR and ESI mass spectrometry. Also, the structure of all the complexes (1-3) was confirmed by the Single-Crystal X-ray diffraction analysis, which revealed a distorted octahedral geometry around the metal centres. The solution behavior of the [VVOL1(OCH3)] (1) reveals the formation of two different types of V(V) species in solution, the structurally characterized compound 1 and its corresponding monooxido-bridged divanadium (V, V) complex [VVOL1]2(μ-O), which was further studied by IR, and NMR spectroscopy. The electrochemical behavior of all the complexes was evaluated through cyclic voltammetry. Interaction of the salan-V(V) complexes with human serum albumin (HSA) and bovine serum albumin (BSA) were analysed through fluorescence quenching, UV-vis absorption titration, synchronous fluorescence, circular dichroism studies, and förster resonance energy transfer (FRET). Finally, the in vitro cytotoxicity of the complexes was investigated against MCF-7 and HT-29 and NIH-3T3 cell lines. Cytotoxicity value of complexes in both MCF-7 and HT-29 follows the same trend that is 3 > 1 > 2 which is in line with protein binding affinity of the complexes.
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Affiliation(s)
- Sushree Aradhana Patra
- Department of Chemistry, National Institute of Technology, Rourkela, 769008, Odisha, India
| | - Monalisa Mohanty
- Department of Chemistry, National Institute of Technology, Rourkela, 769008, Odisha, India
| | - Atanu Banerjee
- Department of Chemistry, National Institute of Technology, Rourkela, 769008, Odisha, India
| | - Shivani Kesarwani
- Department of Chemistry, National Institute of Technology, Rourkela, 769008, Odisha, India
| | - Felix Henkel
- Institute of Chemistry of New Materials, University of Osnabrück, Barbarastraße 6, 49069 Osnabruck, Germany
| | - Hans Reuter
- Institute of Chemistry of New Materials, University of Osnabrück, Barbarastraße 6, 49069 Osnabruck, Germany
| | - Rupam Dinda
- Department of Chemistry, National Institute of Technology, Rourkela, 769008, Odisha, India.
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5
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Negro C, Martínez Pérez-Cejuela H, Simó-Alfonso EF, Herrero-Martínez JM, Bruno R, Armentano D, Ferrando-Soria J, Pardo E. Highly Efficient Removal of Neonicotinoid Insecticides by Thioether-Based (Multivariate) Metal-Organic Frameworks. ACS APPLIED MATERIALS & INTERFACES 2021; 13:28424-28432. [PMID: 34121386 PMCID: PMC9201812 DOI: 10.1021/acsami.1c08833] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
Circumventing the impact of agrochemicals on aquatic environments has become a necessity for health and ecological reasons. Herein, we report the use of a family of five eco-friendly water-stable isoreticular metal-organic frameworks (MOFs), prepared from amino acids, as adsorbents for the removal of neonicotinoid insecticides (thiamethoxam, clothianidin, imidacloprid, acetamiprid, and thiacloprid) from water. Among them, the three MOFs containing thioether-based residues show remarkable removal efficiency. In particular, the novel multivariate MOF {SrIICuII6[(S,S)-methox]1.5[(S,S)-Mecysmox]1.50(OH)2(H2O)}·36H2O (5), featuring narrow functional channels decorated with both -CH2SCH3 and -CH2CH2SCH3 thioalkyl chains-from l-methionine and l-methylcysteine amino acid-derived ligands, respectively-stands out and exhibits the higher removal efficiency, being capable to capture 100% of acetamiprid and thiacloprid in a single capture step under dynamic solid-phase extraction conditions-less than 30 s. Such unusual combination of outstanding efficiency, high stability in environmental conditions, and low-cost straightforward synthesis in 5 places this material among the most attractive adsorbents reported for the removal of this type of contaminants.
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Affiliation(s)
- Cristina Negro
- Instituto
de Ciencia Molecular (ICMol), Universidad
de Valencia, 46980 Paterna, Valencia, Spain
| | | | - Ernesto F. Simó-Alfonso
- Departamento
de Química Analítica, Universitat
de València, c/Dr.
Moliner, 50, 46100 Burjassot, Valencia, Spain
| | | | - Rosaria Bruno
- Dipartimento
di Chimica e Tecnologie Chimiche (CTC), Università della Calabria, Rende 87036, Cosenza, Italy
| | - Donatella Armentano
- Dipartimento
di Chimica e Tecnologie Chimiche (CTC), Università della Calabria, Rende 87036, Cosenza, Italy
| | - Jesús Ferrando-Soria
- Instituto
de Ciencia Molecular (ICMol), Universidad
de Valencia, 46980 Paterna, Valencia, Spain
| | - Emilio Pardo
- Instituto
de Ciencia Molecular (ICMol), Universidad
de Valencia, 46980 Paterna, Valencia, Spain
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6
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Tanaka H, Akaiwa M, Negoro K, Kawaminami E, Mihara H, Fuji H, Okimoto R, Ino K, Ishizu K, Takahashi T. Design, Synthesis, and Structure-Activity Relationships Study of N-Pyrimidyl/Pyridyl-2-thiazolamine Analogues as Novel Positive Allosteric Modulators of M 3 Muscarinic Acetylcholine Receptor. Chem Pharm Bull (Tokyo) 2021; 69:360-373. [PMID: 33790081 DOI: 10.1248/cpb.c20-00877] [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] [Indexed: 11/22/2022]
Abstract
The M3 muscarinic acetylcholine receptor (mAChR) plays an essential pharmacological role in mediating a broad range of actions of acetylcholine (ACh) released throughout the periphery and central nerve system (CNS). Nevertheless, its agonistic functions remain unclear due to the lack of available subtype-selective agonists or positive allosteric modulators (PAMs). In the course of our extended structure-activity relationships (SARs) study on 2-acylaminothiazole derivative 1, a previously reported PAM of the M3 mAChR, we successfully identified N-pyrimidyl/pyridyl-2-thiazolamine analogues as new scaffolds. The SARs study was rationalized using conformational analyses based on intramolecular interactions. A comprehensive study of a series of analogues described in this paper suggests that a unique sulfur-nitrogen nonbonding interaction in the N-pyrimidyl/pyridyl-2-thiazolamine moiety enable conformations that are essential for activity. Further, a SARs study around the N-pyrimidyl/pyridyl-2-thiazolamine core culminated in the discovery of compound 3g, which showed potent in vitro PAM activity for the M3 mAChR with excellent subtype selectivity. Compound 3g also showed a distinct pharmacological effect on isolated smooth muscle tissue from rat bladder and favorable pharmacokinetics profiles, suggesting its potential as a chemical tool for probing the M3 mAChR in further research.
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7
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Polynuclear zinc(II) complexes of thiosemicarbazone: Synthesis, X-ray structure and biological evaluation. J Inorg Biochem 2019; 203:110908. [PMID: 31683125 DOI: 10.1016/j.jinorgbio.2019.110908] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2019] [Revised: 10/21/2019] [Accepted: 10/27/2019] [Indexed: 01/23/2023]
Abstract
Two new dimeric Zn(II) ([{ZnL1(DMSO2)}2]·DMSO (1), [{ZnL2Cl}2] (2)) and a novel tetrameric Zn(II) complex ([(Zn2L3)2(μ-OAc)2(μ3-O)2] (3)), where H2L1 = 4-(p-methoxyphenyl) thiosemicarbazone of o-hydroxynapthaldehyde, HL2 = 4-(p-methoxyphenyl)thiosemicarbazone of benzoyl pyridine and H2L3 = 4-(p-chlorophenyl)thiosemicarbazone of o-vanillin are reported. Ligands and their complexes were characterized by spectroscopic and single crystal X-ray diffraction techniques. In addition, the complexes exhibited good binding affinity towards HSA (1012 M-1), which is supported by their ability to quench the tryptophan fluorescence emission spectra of HSA. The complexes were also screened for their DNA binding propensity through UV-vis absorption titration, circular dichroism and fluorescence spectral studies. Results show that they effectively interact with CT-DNA through an intercalative mode of binding, with binding constants ranging from 103 to 104 M-1. Among the three complexes 1 has the highest binding affinity towards CT-DNA. Further, the phosphatase activity was evaluated using bis(2,4-dinitrophenyl)phosphate (BDNPP) as substrate, however, the complexes did not yield any measurable catalytic activity. Nevertheless the complexes showed significant cytotoxic potential against HeLa and HT-29 cancer cell lines that was assessed through MTT assay and DAPI staining. Remarkably, complex 1 showed better activity than cisplatin against HT-29 cell line.
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García-Ortiz AL, Domínguez-González R, Romero-Ávila M, Flores-Pérez B, Guillén L, Castro M, Barba-Behrens N. The role of weak interactions in self-assembly of supramolecular associations of benzothiazole derivatives and their coordination compounds. Inorganica Chim Acta 2018. [DOI: 10.1016/j.ica.2017.10.012] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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9
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Pinheiro PDSM, Rodrigues DA, Alves MA, Tinoco LW, Ferreira GB, de Sant’Anna CMR, Fraga CAM. Theoretical and experimental characterization of 1,4-N⋯S σ-hole intramolecular interactions in bioactive N-acylhydrazone derivatives. NEW J CHEM 2018. [DOI: 10.1039/c7nj03543h] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Abstract
Sigma-hole (σ-hole) bonds are interactions that are gaining special attention in medicinal chemistry.
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Affiliation(s)
- Pedro de Sena Murteira Pinheiro
- Laboratório de Avaliação e Síntese de Substâncias Bioativas (LASSBio)
- Instituto de Ciências Biomédicas
- Universidade Federal do Rio de Janeiro
- PO Box 68023
- Rio de Janeiro
| | - Daniel Alencar Rodrigues
- Laboratório de Avaliação e Síntese de Substâncias Bioativas (LASSBio)
- Instituto de Ciências Biomédicas
- Universidade Federal do Rio de Janeiro
- PO Box 68023
- Rio de Janeiro
| | - Marina Amaral Alves
- Laboratório de Avaliação e Síntese de Substâncias Bioativas (LASSBio)
- Instituto de Ciências Biomédicas
- Universidade Federal do Rio de Janeiro
- PO Box 68023
- Rio de Janeiro
| | - Luzineide Wanderley Tinoco
- Programa de Pós-Graduação em Farmacologia e Química Medicinal
- Instituto de Ciências Biomédicas
- Universidade Federal do Rio de Janeiro
- 21941-902
- Rio de Janeiro
| | - Glaucio Braga Ferreira
- Programa de Pós-Graduação em Química
- Instituto de Química
- Universidade Federal Fluminense
- Niterói
- Rio de Janeiro
| | - Carlos Mauricio Rabello de Sant’Anna
- Laboratório de Avaliação e Síntese de Substâncias Bioativas (LASSBio)
- Instituto de Ciências Biomédicas
- Universidade Federal do Rio de Janeiro
- PO Box 68023
- Rio de Janeiro
| | - Carlos Alberto Manssour Fraga
- Laboratório de Avaliação e Síntese de Substâncias Bioativas (LASSBio)
- Instituto de Ciências Biomédicas
- Universidade Federal do Rio de Janeiro
- PO Box 68023
- Rio de Janeiro
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10
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Huang H, Yang L, Facchetti A, Marks TJ. Organic and Polymeric Semiconductors Enhanced by Noncovalent Conformational Locks. Chem Rev 2017; 117:10291-10318. [DOI: 10.1021/acs.chemrev.7b00084] [Citation(s) in RCA: 415] [Impact Index Per Article: 59.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Affiliation(s)
- Hui Huang
- College
of Materials Science and Optoelectronic Technology and Chinese Academy
of Sciences Key Laboratory of Vacuum Physics, University of Chinese Academy of Sciences, Beijing 100049, People’s Republic of China
| | - Lei Yang
- College
of Materials Science and Optoelectronic Technology and Chinese Academy
of Sciences Key Laboratory of Vacuum Physics, University of Chinese Academy of Sciences, Beijing 100049, People’s Republic of China
| | - Antonio Facchetti
- Department
of Chemistry and Materials Research Center, Northwestern University, Evanston, Illinois 60208, United States
- Flexterra Corporation, 8025 Lamon
Avenue, Skokie, Illinois 60077, United States
| | - Tobin J. Marks
- Department
of Chemistry and Materials Research Center, Northwestern University, Evanston, Illinois 60208, United States
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11
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Liu X, He B, Anderson CL, Kang J, Chen T, Chen J, Feng S, Zhang L, Kolaczkowski MA, Teat SJ, Brady MA, Zhu C, Wang LW, Chen J, Liu Y. para-Azaquinodimethane: A Compact Quinodimethane Variant as an Ambient Stable Building Block for High-Performance Low Band Gap Polymers. J Am Chem Soc 2017; 139:8355-8363. [DOI: 10.1021/jacs.7b04031] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Xuncheng Liu
- Institute of Polymer Optoelectronic Materials & Devices, State Key Laboratory of Luminescent Materials & Devices, South China University of Technology, Guangzhou 510640, P.R. China
| | | | - Christopher L. Anderson
- Department
of Chemistry, University of California, Berkeley, Berkeley, California 94720, United States
| | | | | | - Jinxiang Chen
- Institute of Polymer Optoelectronic Materials & Devices, State Key Laboratory of Luminescent Materials & Devices, South China University of Technology, Guangzhou 510640, P.R. China
| | - Shizhen Feng
- Institute of Polymer Optoelectronic Materials & Devices, State Key Laboratory of Luminescent Materials & Devices, South China University of Technology, Guangzhou 510640, P.R. China
| | - Lianjie Zhang
- Institute of Polymer Optoelectronic Materials & Devices, State Key Laboratory of Luminescent Materials & Devices, South China University of Technology, Guangzhou 510640, P.R. China
| | - Matthew A. Kolaczkowski
- Department
of Chemistry, University of California, Berkeley, Berkeley, California 94720, United States
| | | | | | | | | | - Junwu Chen
- Institute of Polymer Optoelectronic Materials & Devices, State Key Laboratory of Luminescent Materials & Devices, South China University of Technology, Guangzhou 510640, P.R. China
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12
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A Synopsis of the Properties and Applications of Heteroaromatic Rings in Medicinal Chemistry. ADVANCES IN HETEROCYCLIC CHEMISTRY 2017. [DOI: 10.1016/bs.aihch.2016.11.002] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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13
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Hudson BM, Nguyen E, Tantillo DJ. The influence of intramolecular sulfur-lone pair interactions on small-molecule drug design and receptor binding. Org Biomol Chem 2016; 14:3975-80. [PMID: 27049933 DOI: 10.1039/c6ob00254d] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Sulfur-lone pair interactions are important conformational control elements in sulfur-containing heterocycles that abound in pharmaceuticals, natural products, agrochemicals, polymers and other important classes of organic molecules. Nonetheless, the role of intramolecular sulfur-lone pair interactions in the binding of small molecules to receptors is often overlooked. Here we analyze the magnitudes and origins of these interactions for a variety of biologically relevant small molecules using quantum chemical and automated docking calculations. In most cases examined in this study, the lowest energy conformation of the small molecule displays a sulfur-lone pair close contact. However, docking studies, both published and new, often predict that conformations without sulfur-lone pair contacts have the best binding affinity for their respective receptors. This is a serious problem. Since many of these predicted bound conformations are not actually energetically accessible, pursuing design (e.g., drug design) around these binding modes necessarily will lead, serendipity aside, to dead end designs. Our results constitute a caution that one best not neglect these interactions when predicting the binding affinities of potential ligands (drugs or not) for hosts (enzymes, receptors, DNA, RNA, synthetic hosts). Moreover, a better understanding and awareness of sulfur-lone pair interactions should facilitate the rational modulation of host-guest interactions involving sulfur-containing molecules.
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Affiliation(s)
- B M Hudson
- Department of Chemistry, University of California, Davis, CA 95618, USA.
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14
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Pennington LD, Bartberger MD, Croghan MD, Andrews KL, Ashton KS, Bourbeau MP, Chen J, Chmait S, Cupples R, Fotsch C, Helmering J, Hong FT, Hungate RW, Jordan SR, Kong K, Liu L, Michelsen K, Moyer C, Nishimura N, Norman MH, Reichelt A, Siegmund AC, Sivits G, Tadesse S, Tegley CM, Van G, Yang KC, Yao G, Zhang J, Lloyd DJ, Hale C, St. Jean DJ. Discovery and Structure-Guided Optimization of Diarylmethanesulfonamide Disrupters of Glucokinase–Glucokinase Regulatory Protein (GK–GKRP) Binding: Strategic Use of a N → S (nN → σ*S–X) Interaction for Conformational Constraint. J Med Chem 2015; 58:9663-79. [DOI: 10.1021/acs.jmedchem.5b01367] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Lewis D. Pennington
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Michael D. Bartberger
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Michael D. Croghan
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Kristin L. Andrews
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Kate S. Ashton
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Matthew P. Bourbeau
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Jie Chen
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Samer Chmait
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Rod Cupples
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Christopher Fotsch
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Joan Helmering
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Fang-Tsao Hong
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Randall W. Hungate
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Steven R. Jordan
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Ke Kong
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Longbin Liu
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Klaus Michelsen
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Carolyn Moyer
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Nobuko Nishimura
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Mark H. Norman
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Andreas Reichelt
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Aaron C. Siegmund
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Glenn Sivits
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Seifu Tadesse
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Christopher M. Tegley
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Gwyneth Van
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Kevin C. Yang
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Guomin Yao
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Jiandong Zhang
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - David J. Lloyd
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - Clarence Hale
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
| | - David J. St. Jean
- Medicinal Chemistry, ‡Molecular Structure and Characterization, §Pharmacokinetics and
Drug Metabolism, ∥Metabolic Disorders Research, and ⊥Pathology, Amgen, One Amgen Center Drive, Thousand Oaks, California 91320-1799, United States
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15
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Tamayo NA, Norman MH, Bartberger MD, Hong FT, Bo Y, Liu L, Nishimura N, Yang KC, Tadesse S, Fotsch C, Chen J, Chmait S, Cupples R, Hale C, Jordan SR, Lloyd DJ, Sivits G, Van G, St Jean DJ. Small Molecule Disruptors of the Glucokinase-Glucokinase Regulatory Protein Interaction: 5. A Novel Aryl Sulfone Series, Optimization Through Conformational Analysis. J Med Chem 2015; 58:4462-82. [PMID: 25914941 DOI: 10.1021/jm5018175] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Abstract
The glucokinase-glucokinase regulatory protein (GK-GKRP) complex plays an important role in controlling glucose homeostasis in the liver. We have recently disclosed a series of arylpiperazines as in vitro and in vivo disruptors of the GK-GKRP complex with efficacy in rodent models of type 2 diabetes mellitus (T2DM). Herein, we describe a new class of aryl sulfones as disruptors of the GK-GKRP complex, where the central piperazine scaffold has been replaced by an aromatic group. Conformational analysis and exploration of the structure-activity relationships of this new class of compounds led to the identification of potent GK-GKRP disruptors. Further optimization of this novel series delivered thiazole sulfone 93, which was able to disrupt the GK-GKRP interaction in vitro and in vivo and, by doing so, increases cytoplasmic levels of unbound GK.
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Affiliation(s)
- Nuria A Tamayo
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Mark H Norman
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Michael D Bartberger
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Fang-Tsao Hong
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Yunxin Bo
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Longbin Liu
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Nobuko Nishimura
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Kevin C Yang
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Seifu Tadesse
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Christopher Fotsch
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Jie Chen
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Samer Chmait
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Rod Cupples
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Clarence Hale
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Steven R Jordan
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - David J Lloyd
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Glenn Sivits
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - Gwyneth Van
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
| | - David J St Jean
- †Department of Therapeutic Discovery-Medicinal Chemistry, ‡Department of Therapeutic Discovery-Molecular Structure and Characterization, §Department of Metabolic Disorders, ∥Department of Pharmacokinetics and Drug Metabolism, and ⊥Department of Pathology, Amgen, Inc., One Amgen Center Drive, Thousand Oaks, California 91320, United States
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16
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Beno BR, Yeung KS, Bartberger MD, Pennington LD, Meanwell NA. A Survey of the Role of Noncovalent Sulfur Interactions in Drug Design. J Med Chem 2015; 58:4383-438. [DOI: 10.1021/jm501853m] [Citation(s) in RCA: 468] [Impact Index Per Article: 52.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Brett R. Beno
- Department of Computer-Assisted Drug Design, Bristol-Myers Squibb Research and Development, 5 Research Parkway Wallingford Connecticut 06492, United States
| | - Kap-Sun Yeung
- Department of Discovery Chemistry, Bristol-Myers Squibb Research and Development, 5 Research Parkway Wallingford Connecticut 06492, United States
| | - Michael D. Bartberger
- Department of Therapeutic Discovery, Amgen Inc., One Amgen Center Drive Thousand Oaks California 91320, United States
| | - Lewis D. Pennington
- Department of Therapeutic Discovery, Amgen Inc., One Amgen Center Drive Thousand Oaks California 91320, United States
| | - Nicholas A. Meanwell
- Department of Discovery Chemistry, Bristol-Myers Squibb Research and Development, 5 Research Parkway Wallingford Connecticut 06492, United States
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17
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Das M, Nasani R, Saha M, Mobin SM, Mukhopadhyay S. Nickel(ii) complexes with a flexible piperazinyl moiety: studies on DNA and protein binding and catecholase like properties. Dalton Trans 2015; 44:2299-310. [DOI: 10.1039/c4dt02675f] [Citation(s) in RCA: 83] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
Nickel complexes with a flexible piperazinyl moiety are showing interesting DNA and protein binding properties and catecholase like activity in the boat conformation.
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Affiliation(s)
- Mriganka Das
- Department of Chemistry
- School of Basic Sciences
- Indian Institute of Technology Indore
- Indore 452017
- India
| | - Rajendar Nasani
- Department of Chemistry
- School of Basic Sciences
- Indian Institute of Technology Indore
- Indore 452017
- India
| | - Manideepa Saha
- Department of Chemistry
- School of Basic Sciences
- Indian Institute of Technology Indore
- Indore 452017
- India
| | - Shaikh M Mobin
- Department of Chemistry
- School of Basic Sciences
- Indian Institute of Technology Indore
- Indore 452017
- India
| | - Suman Mukhopadhyay
- Department of Chemistry
- School of Basic Sciences
- Indian Institute of Technology Indore
- Indore 452017
- India
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18
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Chakraborty A, Sen K. Phase separation in aqueous systems for realizing virtually significant extractions. RSC Adv 2014. [DOI: 10.1039/c4ra06798c] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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19
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Patel S, Cohen F, Dean BJ, De La Torre K, Deshmukh G, Estrada AA, Ghosh AS, Gibbons P, Gustafson A, Huestis MP, Le Pichon CE, Lin H, Liu W, Liu X, Liu Y, Ly CQ, Lyssikatos JP, Ma C, Scearce-Levie K, Shin YG, Solanoy H, Stark KL, Wang J, Wang B, Zhao X, Lewcock JW, Siu M. Discovery of Dual Leucine Zipper Kinase (DLK, MAP3K12) Inhibitors with Activity in Neurodegeneration Models. J Med Chem 2014; 58:401-18. [DOI: 10.1021/jm5013984] [Citation(s) in RCA: 56] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - Changyou Ma
- Department
of Chemistry, WuXi AppTec Co., Ltd., 288 Fute Zhonglu, Wai Gao Qiao Free
Trade Zone, Shanghai, 200131, P. R. China
| | | | | | | | | | - Jian Wang
- Department
of Chemistry, WuXi AppTec Co., Ltd., 288 Fute Zhonglu, Wai Gao Qiao Free
Trade Zone, Shanghai, 200131, P. R. China
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20
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Reid RC, Yau MK, Singh R, Lim J, Fairlie DP. Stereoelectronic effects dictate molecular conformation and biological function of heterocyclic amides. J Am Chem Soc 2014; 136:11914-7. [PMID: 25102224 DOI: 10.1021/ja506518t] [Citation(s) in RCA: 50] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Heterocycles adjacent to amides can have important influences on molecular conformation due to stereoelectronic effects exerted by the heteroatom. This was shown for imidazole- and thiazole-amides by comparing low energy conformations (ab initio MP2 and DFT calculations), charge distribution, dipole moments, and known crystal structures which support a general principle. Switching a heteroatom from nitrogen to sulfur altered the amide conformation, producing different three-dimensional electrostatic surfaces. Differences were attributed to different dipole and orbital alignments and spectacularly translated into opposing agonist vs antagonist functions in modulating a G-protein coupled receptor for inflammatory protein complement C3a on human macrophages. Influences of the heteroatom were confirmed by locking the amide conformation using fused bicyclic rings. These findings show that stereoelectronic effects of heterocycles modulate molecular conformation and can impart strikingly different biological properties.
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Affiliation(s)
- Robert C Reid
- Division of Chemistry and Structural Biology, Institute for Molecular Bioscience, The University of Queensland , Brisbane, QLD 4072, Australia
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21
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Jackson NE, Savoie BM, Kohlstedt KL, Olvera de la Cruz M, Schatz GC, Chen LX, Ratner MA. Controlling Conformations of Conjugated Polymers and Small Molecules: The Role of Nonbonding Interactions. J Am Chem Soc 2013; 135:10475-83. [DOI: 10.1021/ja403667s] [Citation(s) in RCA: 334] [Impact Index Per Article: 30.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- Nicholas E. Jackson
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston,
Illinois 60208, United States
| | - Brett M. Savoie
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston,
Illinois 60208, United States
| | - Kevin L. Kohlstedt
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston,
Illinois 60208, United States
| | - Monica Olvera de la Cruz
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston,
Illinois 60208, United States
| | - George C. Schatz
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston,
Illinois 60208, United States
| | - Lin X. Chen
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston,
Illinois 60208, United States
- Chemical Sciences and Engineering
Division, Argonne National Laboratory,
9700 South Cass Avenue, Argonne, Illinois 60439, United States
| | - Mark A. Ratner
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston,
Illinois 60208, United States
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22
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He Z, Trinchera P, Adachi S, St Denis JD, Yudin AK. Oxidative geminal functionalization of organoboron compounds. Angew Chem Int Ed Engl 2012; 51:11092-6. [PMID: 23038428 DOI: 10.1002/anie.201206501] [Citation(s) in RCA: 85] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2012] [Indexed: 12/20/2022]
Abstract
Excellent tolerance: Stable acylboronates equipped with N-methyliminodiacetyl (MIDA) boryl groups ([B]) were prepared by using a sequence of oxidative manipulations at the boron-bound carbon center (green in scheme). Chemoselective transformations of these acylated organoboron building blocks yielded a range of multifunctionalized boron derivatives and supplied access to valuable borylated heterocycles (see scheme).
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Affiliation(s)
- Zhi He
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George St. Toronto, ON, M5S 3H6, Canada
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23
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He Z, Trinchera P, Adachi S, St. Denis JD, Yudin AK. Oxidative Geminal Functionalization of Organoboron Compounds. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201206501] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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24
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He L, Seitz SP, Trainor GL, Tortolani D, Vaccaro W, Poss M, Tarby CM, Tokarski JS, Penhallow B, Hung CY, Attar R, Lin TA. Modulation of cofilin phosphorylation by inhibition of the Lim family kinases. Bioorg Med Chem Lett 2012; 22:5995-8. [DOI: 10.1016/j.bmcl.2012.07.002] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2012] [Revised: 06/27/2012] [Accepted: 07/02/2012] [Indexed: 10/28/2022]
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25
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Vinh NB, Simpson JS, Scammells PJ, Chalmers DK. Virtual screening using a conformationally flexible target protein: models for ligand binding to p38α MAPK. J Comput Aided Mol Des 2012; 26:409-23. [PMID: 22527960 DOI: 10.1007/s10822-012-9569-7] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2011] [Accepted: 03/26/2012] [Indexed: 12/25/2022]
Abstract
We have used virtual screening to develop models for the binding of aryl substituted heterocycles to p38α MAPK. Virtual screening was conducted on a number of p38α MAPK crystal structures using a library of 46 known p38α MAPK inhibitors containing a heterocyclic core substituted by pyridine and fluorophenyl rings (structurally related to SB203580) and a set of decoy compounds. Multiple protonation states and tautomers of active and decoy compounds were considered. Each docking model was evaluated using receiver operating characteristic (ROC) curves and enrichment factors. The two best performing single crystal structures were found to be 1BL7 and 2EWA, with enrichment factors of 14.1 and 13.0 at 2% of the virtual screen respectively. Ensembles of up to four receptors of similar conformations were generated, generally giving good or very good performances with high ROC AUCs and good enrichment. The 1BL7-2EWA ensemble was able to outperform each of its constituent receptors and gave high enrichment factors of 17.3, 12.0, 8.0 at 2, 5 and 10% respectively, of the virtual screen. A ROC AUC of 0.94 was obtained for this ensemble. This method may be applied to other proteins where there are a large number of inhibitor classes with different binding site conformations.
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Affiliation(s)
- Natalie B Vinh
- Medicinal Chemistry, Monash Institute of Pharmaceutical Sciences, Monash University (Parkville Campus), 381 Royal Parade, Parkville, VIC, 3052, Australia
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26
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Meanwell NA. Synopsis of Some Recent Tactical Application of Bioisosteres in Drug Design. J Med Chem 2011; 54:2529-91. [DOI: 10.1021/jm1013693] [Citation(s) in RCA: 1876] [Impact Index Per Article: 144.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Nicholas A. Meanwell
- Department of Medicinal Chemistry, Bristol-Myers Squibb Pharmaceutical Research and Development, 5 Research Parkway, Wallingford, Connecticut 06492, United States
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