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Georgiou N, Gouleni N, Chontzopoulou E, Skoufas GS, Gkionis A, Tzeli D, Vassiliou S, Mavromoustakos T. Structure assignment, conformational properties and discovery of potential targets of the Ugi cinnamic adduct NGI25. J Biomol Struct Dyn 2023; 41:1253-1266. [PMID: 34963425 DOI: 10.1080/07391102.2021.2017356] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
The structure assignment and conformational analysis of cinnamic derivative N-benzyl-N-(2-(cyclohexylamino)-2-oxoethyl) cinnamamide (NGI25) was carried out through Nuclear Magnetic Resonance (NMR) spectroscopy, Molecular Dynamics (MD) and Quantum Mechanics (QM), i.e. semiempirical and Density Functional Theory (DFT) calculations. Moreover, Homonuclear (COSY, NOESY) and heteronuclear (HSQC, HMBC) experiments were applied to assign its protons and carbons. After structure identification, NGI25 was subjected to computational calculations to reveal its most favorable conformations. In particular, MD studies were performed in two different solvents, DMSO of intermediate polarity and hydrophobic CHCl3. The obtained results suggest that NGI25 adopts similar conformations in both environments. In particular, the two aromatic rings of the molecule reside in spatial vicinity, while they remain quite distant from the cyclohexane. 2D NOESY experiments confirmed the in silico MD and QM calculations. Finally, molecular docking calculations were performed in order to reveal possible enzyme-targets for NGI25. Swiss target module was used to guide the discovery of new targets based on the structure of NGI. Indeed, it was predicted that NGI25 inhibited butyrylcholinesterase (BCHE) and lipoxygenase (LOX). Molecular docking experiments, followed by Molecular Dynamics studies, confirmed the favorable binding of NGI25 to both enzymes.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Nikitas Georgiou
- Department of Chemistry, Laboratory of Organic Chemistry, National and Kapodistrian University of Athens, Athens, Greece
| | - Niki Gouleni
- Department of Chemistry, Laboratory of Organic Chemistry, National and Kapodistrian University of Athens, Athens, Greece
| | - Eleni Chontzopoulou
- Department of Chemistry, Laboratory of Organic Chemistry, National and Kapodistrian University of Athens, Athens, Greece
| | - George S Skoufas
- Department of Chemistry, Laboratory of Organic Chemistry, National and Kapodistrian University of Athens, Athens, Greece
| | - Anastasios Gkionis
- Department of Chemistry, Laboratory of Organic Chemistry, National and Kapodistrian University of Athens, Athens, Greece
| | - Demeter Tzeli
- Department of Chemistry, Laboratory of Physical Chemistry, National and Kapodistrian University of Athens, Athens, Greece.,Theoretical and Physical Chemistry Institute, National Hellenic Research Foundation, Athens, Greece
| | - Stamatia Vassiliou
- Department of Chemistry, Laboratory of Organic Chemistry, National and Kapodistrian University of Athens, Athens, Greece
| | - Thomas Mavromoustakos
- Department of Chemistry, Laboratory of Organic Chemistry, National and Kapodistrian University of Athens, Athens, Greece
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Dürr H. Konformationsuntersuchungen von Derivaten des 1.1-Dimethyl-cyclohexanons-(3) und des 1.1-Dimethyl-cyclohexanols-(3) mit Hilfe der Kernresonanz. ACTA ACUST UNITED AC 2014. [DOI: 10.1002/bbpc.19650690717] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Abdou IM, Rateb NM, Eldeab HA. Fast and efficient microwave synthetic methods for some new 2(1H)-pyridone arabinosides. HETEROCYCL COMMUN 2012. [DOI: 10.1515/hc-2012-0091] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
AbstractTwo series of novel 3-cyano-2-(2′′,3′′,4′′-tri-
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Kleinpeter E, Duschek C, Mühlstädt M. Konformationsuntersuchungen mit Hilfe der13C-NMR-Spektroskopie. I. Vorzugskonformation von alkylsubstituierten Di- bzw. Tetrahydropyranen (Rosenoxide und Analoga). ACTA ACUST UNITED AC 2004. [DOI: 10.1002/prac.19783200218] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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Thomas AF. La configuration du «carquéjol» (Isopropényl-2-méthylène-3-cyclohexène-4-ol) et la conformation privilégiée de l' ortho-néo-isomenthol. Helv Chim Acta 2004. [DOI: 10.1002/hlca.19670500320] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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Vaino AR, Szarek WA. An examination of the purported reverse anomeric effect beyond acetylated N-xylosyl- and N-glucosylimidazoles. J Org Chem 2001; 66:1097-102. [PMID: 11312934 DOI: 10.1021/jo9917689] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Syntheses of six new N-(pentopyranosyl)imidazoles have been achieved, and their conformations were observed with and without protonation. A decisive decrease in J(5',4), consistent with stabilization of the 1C4 conformations, was clearly observed for three N-(pentopyranosyl)imidazoles. As well, no reverse anomeric stabilization was observed for N-(2,3,4-tri-O-acetyl-alpha-D-lyxopyranosyl)imidazole upon protonation. It is suggested that the previous observations of the reverse anomeric effect were due to the slight increase in steric bulk of the imidazole aglycone upon protonation, along with favorable dipolar interactions between ring substituents, and not by a reverse of the anomeric effect.
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Affiliation(s)
- A R Vaino
- Department of Chemistry, Queen's University, Kingston, Ontario K7L 3N6, Canada
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Van Luppen JJ, Lepoivre JA, Dommisse RA, Alderweireldt FC. NMR study on trapping techniques to deduce the conformations of 1-alkyl-3- hydroxypiperidines. ACTA ACUST UNITED AC 1982. [DOI: 10.1002/mrc.1270180406] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Lambrecht G. Konformatives Verhalten des 4-Diphenylacetoxy-N-dimethylpiperidinium-p-toluolsulfonats, eines selektiven Antagonisten an muskarinischen m1-Rezeptoren. Arch Pharm (Weinheim) 1982. [DOI: 10.1002/ardp.19823150218] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Ayi A, Remli M, Guedj R, Pastor R. Monofluoration stereoselective par le phenyltetrafluorophosphorane (PhPF4) Part. II. Application a la synthese des isomeres thréo et érythro des alkyl-2 fluoro-3 phenylpropanoates de methyle. Analyse conformationnelle par R.M.N. de 19F et 1H. J Fluor Chem 1981. [DOI: 10.1016/s0022-1139(00)85258-6] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Došen-Mićović L, Jeremić D, Allinger NL. The conformational equilibrium of 1,3-dichloro-5-methylcyclohexane. Tetrahedron 1981. [DOI: 10.1016/s0040-4020(01)98859-3] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Fritz G, Maas J. Bildung siliciumorganischer Verbindungen, 79. NMR-spektroskopische Untersuchung der 1,3,5-Trisilacyclohexane und 1,3,5,7-Tetrasilaadamantane. Z Anorg Allg Chem 1980. [DOI: 10.1002/zaac.19804600113] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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Ayi A, Condom R, Wade T, Guedj R. Monofluoration quantitative par le phenyltetrafluorophosphorane influence de la température. J Fluor Chem 1979. [DOI: 10.1016/s0022-1139(00)82521-x] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Lambrecht G. [Structure- and conformation-activity relationships of heterocyclic acetylcholine analogs. 5. The stereochemistry of cis- and trans-4-acetoxy-1-methylthioniacyclohexanes]. Arch Pharm (Weinheim) 1978; 311:636-8. [PMID: 678076 DOI: 10.1002/ardp.19783110714] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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Casy AF, Coates JE. Conformational analysis of the tropane analogue of pethidine and related compounds by1H NMR spectroscopy. ACTA ACUST UNITED AC 1974. [DOI: 10.1002/mrc.1270060809] [Citation(s) in RCA: 35] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Filippova TM, Lavrukhin BD, Shmyrev IK. Application of the temperature dependence of vicinal spin-spin coupling constants to the investigation of the configuration of substituents in saturated 5-membered rings. ACTA ACUST UNITED AC 1974. [DOI: 10.1002/mrc.1270060209] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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Collins P, Overend W, Rayner B. The synthesis and solvolysis of some fully acetylated glycopyranosylulose chlorides. Carbohydr Res 1973. [DOI: 10.1016/s0008-6215(00)82312-5] [Citation(s) in RCA: 27] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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Guedj R, Nabet R, Wade T. Amines β-fluorees, β-aromatiques : Synthese et etude par rmn du fluor. Tetrahedron Lett 1973. [DOI: 10.1016/s0040-4039(00)72448-8] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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Durette PL, Horton D. Conformational studies on pyranoid sugar derivatives by NMR spectroscopy. Correlations of observed proton—proton coupling constants with the generalized Karplus equation. ACTA ACUST UNITED AC 1971. [DOI: 10.1002/mrc.1270030405] [Citation(s) in RCA: 102] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Durette P, Horton D. Conformational studies on pyranoid sugar derivatives by n.m.r. spectroscopy. The conformational equilibria of the peracetylated 1,2-trans 1-thioaldopentopyranoses in solution. Carbohydr Res 1971. [DOI: 10.1016/s0008-6215(00)80277-3] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Durette P, Horton D. Conformational studies on pyranoid sugar derivatives by n.m.r. spectroscopy. Conformational equilibria of the peracetylated and some perbenzoylated methyl d-aldopentopyranosides in solution. Carbohydr Res 1971. [DOI: 10.1016/s0008-6215(00)80276-1] [Citation(s) in RCA: 33] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Durette P, Horton D. Conformational studies on pyranoid sugar derivatives by n.m.r. spectroscopy. The conformational equilibria of the 1,2-trans peracetylated aldopentopyranosyl benzoates and perbenzoylated aldopentopyranosyl acetates in solution. Carbohydr Res 1971. [DOI: 10.1016/s0008-6215(00)80275-x] [Citation(s) in RCA: 20] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Cantacuzène J, Jantzen R. Synthèse stéréospécifique des cis- et trans-fluoro-2 t.butyl-4 cyclohexanones. Tetrahedron 1970. [DOI: 10.1016/s0040-4020(01)92820-0] [Citation(s) in RCA: 20] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Trager WF, Nist BJ, Huitric AC. NMR conformational analysis of 4-hydroxycyclohexanone and 1,4-cyclohexanediols. Coupling constants averaging induced by conformational equilibria and by strong coupling effects--role of solvent. J Pharm Sci 1967; 56:698-704. [PMID: 6034801 DOI: 10.1002/jps.2600560607] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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The configurations and conformations of 2-carboxycyclopentanols and the corresponding methyl and ethyl esters. Tetrahedron 1967. [DOI: 10.1016/s0040-4020(01)88832-3] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Jakobsen H. Conformation and stereospecific long-range spin coupling in cis-3,5-dibromocyclopentene. Tetrahedron Lett 1967. [DOI: 10.1016/s0040-4039(00)90771-8] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Celotti J, Reisse J, Chiurdoglu G. Analyse conformationnelle par resonance nucleaire magnetique—III. Tetrahedron 1966. [DOI: 10.1016/s0040-4020(01)82145-1] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Feltkamp H, Franklin NC. Kernresonanzspektroskopische Konformationsanalyse an Cyclohexanderivaten. Angew Chem Int Ed Engl 1965. [DOI: 10.1002/ange.19650771709] [Citation(s) in RCA: 48] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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TRAGER WF, NIST BJ, HUITRIC AC. Solvent effects in conformational analysis of 1,4-cyclohexanediols. Tetrahedron Lett 1965; 57:267-73. [PMID: 14268143 DOI: 10.1016/s0040-4039(00)89952-9] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Chen CY, Le Fèvre R. The free energy difference between the axial and the equatorial dispositions of the hydroxyl group in N-methyl-4-piperidinol by proton magnetic resonance spectroscopy. Tetrahedron Lett 1965. [DOI: 10.1016/s0040-4039(01)99614-5] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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The variation of vicinal proton-proton coupling constants with orientation of electronegative substituents. Tetrahedron Lett 1965. [DOI: 10.1016/s0040-4039(00)89969-4] [Citation(s) in RCA: 134] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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