Crystal structure, quantum chemical insights, and molecular docking studies of Naryl-2-(N-disubstituted) acetamide compounds: potential inhibitors for neurodegenerative enzymes
The increase in and concern about neurodegenerative diseases continue to grow in an increasingly long-lived world population. Therefore, the search for new drugs continues to be a priority for medicinal chemistry. We present here the synthesis of a series of compounds with acetamide nuclei. Their st...
- Autores:
-
Camargo-Ayala, Lorena
Bedoya, Mauricio
Prent-Peñaloza, Luis
Polo-Cuadrado, Efraín
Osorio Lopez, Edison Humberto
Brito, Iván
Delgado, Gerzon E.
González, Wendy
Gutierrez, Margarita
- Tipo de recurso:
- Article of investigation
- Fecha de publicación:
- 2024
- Institución:
- Universidad de Ibagué
- Repositorio:
- Repositorio Universidad de Ibagué
- Idioma:
- eng
- OAI Identifier:
- oai:repositorio.unibague.edu.co:20.500.12313/5800
- Acceso en línea:
- https://hdl.handle.net/20.500.12313/5800
https://pubs.rsc.org/en/content/articlelanding/2024/ra/d3ra08649f
- Palabra clave:
- Estructura cristalina
Binding energy
Crystal structure
Free energy
Neurodegenerative diseases
Quantum chemistry
- Rights
- openAccess
- License
- © 2024 The Royal Society of Chemistry.
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Crystal structure, quantum chemical insights, and molecular docking studies of Naryl-2-(N-disubstituted) acetamide compounds: potential inhibitors for neurodegenerative enzymes |
| title |
Crystal structure, quantum chemical insights, and molecular docking studies of Naryl-2-(N-disubstituted) acetamide compounds: potential inhibitors for neurodegenerative enzymes |
| spellingShingle |
Crystal structure, quantum chemical insights, and molecular docking studies of Naryl-2-(N-disubstituted) acetamide compounds: potential inhibitors for neurodegenerative enzymes Estructura cristalina Binding energy Crystal structure Free energy Neurodegenerative diseases Quantum chemistry |
| title_short |
Crystal structure, quantum chemical insights, and molecular docking studies of Naryl-2-(N-disubstituted) acetamide compounds: potential inhibitors for neurodegenerative enzymes |
| title_full |
Crystal structure, quantum chemical insights, and molecular docking studies of Naryl-2-(N-disubstituted) acetamide compounds: potential inhibitors for neurodegenerative enzymes |
| title_fullStr |
Crystal structure, quantum chemical insights, and molecular docking studies of Naryl-2-(N-disubstituted) acetamide compounds: potential inhibitors for neurodegenerative enzymes |
| title_full_unstemmed |
Crystal structure, quantum chemical insights, and molecular docking studies of Naryl-2-(N-disubstituted) acetamide compounds: potential inhibitors for neurodegenerative enzymes |
| title_sort |
Crystal structure, quantum chemical insights, and molecular docking studies of Naryl-2-(N-disubstituted) acetamide compounds: potential inhibitors for neurodegenerative enzymes |
| dc.creator.fl_str_mv |
Camargo-Ayala, Lorena Bedoya, Mauricio Prent-Peñaloza, Luis Polo-Cuadrado, Efraín Osorio Lopez, Edison Humberto Brito, Iván Delgado, Gerzon E. González, Wendy Gutierrez, Margarita |
| dc.contributor.author.none.fl_str_mv |
Camargo-Ayala, Lorena Bedoya, Mauricio Prent-Peñaloza, Luis Polo-Cuadrado, Efraín Osorio Lopez, Edison Humberto Brito, Iván Delgado, Gerzon E. González, Wendy Gutierrez, Margarita |
| dc.subject.armarc.none.fl_str_mv |
Estructura cristalina |
| topic |
Estructura cristalina Binding energy Crystal structure Free energy Neurodegenerative diseases Quantum chemistry |
| dc.subject.proposal.eng.fl_str_mv |
Binding energy Crystal structure Free energy Neurodegenerative diseases Quantum chemistry |
| description |
The increase in and concern about neurodegenerative diseases continue to grow in an increasingly long-lived world population. Therefore, the search for new drugs continues to be a priority for medicinal chemistry. We present here the synthesis of a series of compounds with acetamide nuclei. Their structures were established using UV-Visible, NMR, HRMS and IR techniques. Furthermore, we report the crystal structures that were obtained from compounds 5a-5d by X-ray diffraction. The compounds were evaluated as potential inhibitors of the monoxidase enzymes; A (MAO-A) and B (MAO-B), and cholinesterases; acetylcholinesterase (AChE) and butyrylcholinesterase (BChE) through in silico studies using the induced fit docking (IFD) method and binding free energy (ΔGbind) calculations by the MMGBSA method. Interestingly, compounds 5b, 5c and 5d showed much better ΔGbind than the reference drug Zonisamide. Compound 5c is the best in the series, which indicates a potential selective affinity of our compounds against MAO-B, which could be a promising finding in the search for new drugs for Parkinson's disease treatment. The acetamide crystal exhibits moderate NLO properties suggesting that it could be considered a potential candidate for application in nonlinear optical devices. |
| publishDate |
2024 |
| dc.date.issued.none.fl_str_mv |
2024-02-09 |
| dc.date.accessioned.none.fl_str_mv |
2025-10-17T22:49:05Z |
| dc.date.available.none.fl_str_mv |
2025-10-17T22:49:05Z |
| dc.type.none.fl_str_mv |
Artículo de revista |
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http://purl.org/coar/resource_type/c_2df8fbb1 |
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http://purl.org/coar/version/c_970fb48d4fbd8a85 |
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Text |
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Camargo-Ayala, L., Bedoya, M., Prent-Peñaloza, L., Polo-Cuadrado, E., Osorio, E., Brito, Iván., Delgado, G., González, W. y Gutierrez, M. (2024). Crystal structure, quantum chemical insights, and molecular docking studies of Naryl-2-(N-disubstituted) acetamide compounds: potential inhibitors for neurodegenerative enzymes. RSC Advances, 14(8), 5222 - 5233. DOI: 10.1039/d3ra08649f |
| dc.identifier.doi.none.fl_str_mv |
10.1039/d3ra08649f |
| dc.identifier.issn.none.fl_str_mv |
20462069 |
| dc.identifier.uri.none.fl_str_mv |
https://hdl.handle.net/20.500.12313/5800 |
| dc.identifier.url.none.fl_str_mv |
https://pubs.rsc.org/en/content/articlelanding/2024/ra/d3ra08649f |
| identifier_str_mv |
Camargo-Ayala, L., Bedoya, M., Prent-Peñaloza, L., Polo-Cuadrado, E., Osorio, E., Brito, Iván., Delgado, G., González, W. y Gutierrez, M. (2024). Crystal structure, quantum chemical insights, and molecular docking studies of Naryl-2-(N-disubstituted) acetamide compounds: potential inhibitors for neurodegenerative enzymes. RSC Advances, 14(8), 5222 - 5233. DOI: 10.1039/d3ra08649f 10.1039/d3ra08649f 20462069 |
| url |
https://hdl.handle.net/20.500.12313/5800 https://pubs.rsc.org/en/content/articlelanding/2024/ra/d3ra08649f |
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eng |
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eng |
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5233 |
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8 |
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5222 |
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14 |
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RSC Advances |
| dc.relation.references.none.fl_str_mv |
P. C. Poortvliet , K. O'Maley , P. A. Silburn and G. D. Mellick , Front. Neurol., 2020, 11 , 686 D. L. M. Radder , I. H. Sturkenboom , M. van Nimwegen , S. H. Keus , B. R. Bloem and N. M. de Vries , Int. J. Neurosci., 2017, 127 , 930 —943 J. P. M. Finberg and J. M. Rabey , Front. Pharmacol, 2016, 7 , 340 R. T. Bartus , R. L. Dean , B. Beer and A. S. Lippa , Science, 1982, 217 , 408 —417 W. Poewe , K. Seppi , C. M. Tanner , G. M. Halliday , P. Brundin , J. Volkmann , A. E. Schrag and A. E. Lang , Nat. Rev. Dis. Primers, 2017, 3 , 1 —21 V. A. Panova , S. I. Filimonov , Z. V. Chirkova , M. V. Kabanova , A. A. Shetnev , M. K. Korsakov , A. Petzer , J. P. Petzer and K. Y. Suponitsky , Bioorg. Chem., 2021, 108 , 104563 H. Wasan , D. Singh and R. KH , Brain Res. Bull., 2021, 168 , 165 —177 F. Stocchi , A. Antonini , D. Berg , B. Bergmans , W. Jost , R. Katzenschlager , J. Kulisevsky , P. Odin , F. Valldeoriola and K. Ray Chaudhuri , NPJ Parkinson's dis., 2022, 8 , 1 —9 D. Mishra , A. Fatima , P. Kumar , N. S. Munjal , B. K. Singh and R. Singh , ChemistrySelect, 2022, 7 , 202203060 S. Hosseini , S. A. Pourmousavi , M. Mahdavi and P. Taslimi , J. Mol. Struct., 2022, 1255 , 132229 L. Camargo-Ayala , L. Prent-Peñaloza , E. Polo-Cuadrado , I. Brito , J. Cisterna , E. Osorio , W. González and M. Gutiérrez , J. Mol. Struct., 2021, 131544 W.-H. Liu , L. Guan , D.-H. Zhao , Z.-W. He , Y.-M. Hu , Y.-X. Zhu , L.-J. Zhang , L.-H. Jin , L.-P. Guan and S.-H. Wang , SSRN Electron. J., 2022, 4149179 V. R. Pattabiraman and J. W. Bode , Nature, 2011, 480 , 471 —479 P. W. Seavill and J. D. Wilden , Green Chem., 2020, 22 , 7737 —7759 A. Williams and I. T. Ibrahim , Carbodiimide Chemistry: Recent Advances, 1981, 81 , 589 —636 J. R. Dunetz , J. Magano and G. A. Weisenburger , Org. Process Res. Dev., 2016, 20 , 140 —177 A. El-Faham and F. Albericio , Chem. Rev., 2011, 111 , 6557 —6602 A. Jordan , K. D. Whymark , J. Sydenham and H. F. Sneddon , Green Chem., 2021, 23 , 6405 —6413 L. A. Carpino and A. El-Faham , Tetrahedron, 1999, 55 , 6813 —6830 F. H. Allen , O. Kennard , D. G. Watson , L. Brammer , A. G. Orpen and R. Taylor , J. Chem. Soc., Perkin trans. 2, 1987, S1 —S19 J. Bernstein , R. E. Davis , L. Shimoni and N.-L. Chang , Angew. Chem., Int. Ed. Engl., 1995, 34 , 1555 —1573 B. Narayana , H. S. Yathirajan , R. Rathore and C. Glidewell , Acta Crystallogr., Sect. E: Crystallogr. Commun., 2016, 72 , 1270 —1275 S.-Y. Son , J. Ma , Y. Kondou , M. Yoshimura , E. Yamashita and T. Tsukihara , Proc. Natl. Acad. Sci. U. S. A., 2008, 105 , 5739 —5744 T. Rahman and M. Rahmatullah , Bioorg. Med. Chem. Lett., 2010, 20 , 537 —540 C. Binda , M. Aldeco , A. Mattevi and D. E. Edmondson , J. Med. Chem., 2011, 54 , 909 —912 F. Nachon , E. Carletti , C. Ronco , M. Trovaslet , Y. Nicolet , L. Jean and P. Y. Renard , Biochem. J., 2013, 453 , 393 —399 C. Ronco , R. Foucault , E. Gillon , P. Bohn , F. Nachon , L. Jean and P.-Y. Renard , ChemMedChem, 2011, 6 , 876 —888 M. Ahmed , J. B. T. Rocha , M. Corrêa , C. M. Mazzanti , R. F. Zanin , A. L. B. Morsch , V. M. Morsch and M. R. C. Schetinger , Chem.-Biol. Interact., 2006, 162 , 165 —171 I. Lukac , P. G. Wyatt , I. H. Gilbert and F. Zuccotto , J. Comput. Aided Mol. Des., 2021, 35 , 1025 —1036 Bruker AXS INC., APEX3, SAINT and SADABS, Bruker AXS Inc., Madison, Wisconsin, USA, 2016. G. M.Sheldrick, SADABS, Software for Empirical Absorption Corrections, Univ. Göttingen, Göttingen, Germany, 2000. O. V Dolomanov , L. J. Bourhis , R. J. Gildea , J. A. K. Howard and H. Puschmann , J. Appl. Crystallogr., 2009, 42 , 339 —341 G. M. Sheldrick Acta Crystallogr. C Struct. Chem., 2015, 71 , 3 —8 A. L. Spek J. Appl. Crystallogr., 2003, 36 , 7 —13 R. Krishnan , J. S. Binkley , R. Seeger and J. A. Pople , J. Chem. Phys., 1980, 72 , 650 —654 A. Hellweg and D. Rappoport , Phys. Chem. Chem. Phys., 2015, 17 , 1010 —1017 Y. Zhao and D. G. Truhlar , Theor. Chem. Acc., 2008, 120 , 215 —241 G. T.Frisch, H.Schlegel, G.Scuseria, M.Robb, J.Cheeseman, J.Montgomery, T.Vreven,K.Kudin, J.Burant, J.Millam, S.Iyengar, J.Tomasi, V.Barone, B.Mennucci, M.Cossi, G.Scalmani, N.Rega, G.Petersson, H.Nakatsuji, M.Hada, M.Ehara, K.Toyota, R.Fukuda, J.Hasegawa, M.Ishida, T.Nakajima, Y.Honda, O.Kitao, H.Nakai, M.Klene, X.Li, J.Knox, H.Hratchian, J.Cross, V.Bakken, C.Adamo, J.Jaramillo, R.Gomperts, R.Stratmann, O.Yazyev, A.Austin, R.Cammi, C.Pomelli, J.Ochterski, P.Ayala, K.Morokuma, G.Voth, P.Salvador, J.Dannenberg, V.Zakrzewski, S.Dapprich, A.Daniels, M.Strain, O.Farkas, D.Malick, A.Rabuck, K.Raghavachari, J.Foresman, J.Ortiz, Q.Cui, A.Baboul, S.Clifford, J.Cioslowski, B.Stefanov, G.Liu, A.Liashenko, P.Piskorz, I.Komaromi, R.Martin, D.Fox, T.Keith, A.Laham, C.Peng, A.Nanayakkara, M.Challacombe, P.Gill, B.Johnson, W.Chen, M.Wong, C.Gonzalez and J.Pople, Fox, Gaussian 09, Revision A.08, Gaussian, Inc., Wallingford, 2009. R. Bauernschmitt and R. Ahlrichs , Chem. Phys. Lett., 1996, 256 , 454 —464 M. E. Casida , C. Jamorski , K. C. Casida and D. R. Salahub , J. Chem. Phys., 1998, 108 , 4439 —4449 S. Miertuš , E. Scrocco and J. Tomasi , Chem. Phys., 1981, 55 , 117 —129 J. L. Pascual-ahuir , E. Silla and I. Tuñon , J. Comput. Chem., 1994, 15 , 1127 —1138 H. Chermette J. Comput. Chem., 1999, 20 , 129 —154 Y.-Y. Hu , S.-L. Sun , S. Muhammad , H.-L. Xu and Z.-M. Su , J. Phys. Chem. C, 2010, 114 , 19792 —19798 H.-B. Zhao , Y.-Q. Qiu , C.-G. Liu , S.-L. Sun , Y. Liu and R.-S. Wang , J. Organomet. Chem., 2010, 695 , 2251 —2257 H. M. Berman Nucleic Acids Res., 2000, 28 , 235 —242 G. Madhavi Sastry , M. Adzhigirey , T. Day , R. Annabhimoju and W. Sherman , J. Comput. Aided Mol. Des., 2013, 27 , 221 —234 N. P. P. W. E.Schrödinger, LLC, New York, NY, Impact, Schrödinger, LLC, New York, NY, Prime, Schrödinger, LLC, New York, 2020. M. H. M. Olsson , C. R. Søndergaard , M. Rostkowski and J. H. Jensen , J. Chem. Theory Comput., 2011, 7 , 525 —537 W. Sherman , T. Day , M. P. Jacobson , R. A. Friesner and R. Farid , J. Med. Chem., 2006, 49 , 534 —553 N. I. F. D. P. G.Schrödinger, LLC, New York, NY, Impact, Schrödinger, LLC, New York, NY, Prime, Schrödinger, LLC, New York, 2020. |
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© 2024 The Royal Society of Chemistry. |
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Camargo-Ayala, Lorena41c900ab-b356-4c05-8594-1f10c2d6c414-1Bedoya, Mauricio0f2315c2-ea98-4abb-8701-a0488203a861-1Prent-Peñaloza, Luis75975bd9-cd4e-48b6-99cd-2cbb8f0b1dd9-1Polo-Cuadrado, Efraínf8016ac0-3f43-4599-89b2-3d8e129cb357-1Osorio Lopez, Edison Humbertoa28240e4-ba7f-4632-9175-08073951f7f5600Brito, Iván26ac473f-3c45-4d5a-9701-4e0cf4753fa9-1Delgado, Gerzon E.c9c0c137-e521-463a-aa0b-0f98d8785b6e-1González, Wendyfa2b8cdd-ad49-4bde-b134-d4509141f197-1Gutierrez, Margarita1e5d5269-2479-4110-89ea-da4a2fd1239f-12025-10-17T22:49:05Z2025-10-17T22:49:05Z2024-02-09The increase in and concern about neurodegenerative diseases continue to grow in an increasingly long-lived world population. Therefore, the search for new drugs continues to be a priority for medicinal chemistry. We present here the synthesis of a series of compounds with acetamide nuclei. Their structures were established using UV-Visible, NMR, HRMS and IR techniques. Furthermore, we report the crystal structures that were obtained from compounds 5a-5d by X-ray diffraction. The compounds were evaluated as potential inhibitors of the monoxidase enzymes; A (MAO-A) and B (MAO-B), and cholinesterases; acetylcholinesterase (AChE) and butyrylcholinesterase (BChE) through in silico studies using the induced fit docking (IFD) method and binding free energy (ΔGbind) calculations by the MMGBSA method. Interestingly, compounds 5b, 5c and 5d showed much better ΔGbind than the reference drug Zonisamide. Compound 5c is the best in the series, which indicates a potential selective affinity of our compounds against MAO-B, which could be a promising finding in the search for new drugs for Parkinson's disease treatment. The acetamide crystal exhibits moderate NLO properties suggesting that it could be considered a potential candidate for application in nonlinear optical devices.application/pdfCamargo-Ayala, L., Bedoya, M., Prent-Peñaloza, L., Polo-Cuadrado, E., Osorio, E., Brito, Iván., Delgado, G., González, W. y Gutierrez, M. (2024). Crystal structure, quantum chemical insights, and molecular docking studies of Naryl-2-(N-disubstituted) acetamide compounds: potential inhibitors for neurodegenerative enzymes. RSC Advances, 14(8), 5222 - 5233. DOI: 10.1039/d3ra08649f10.1039/d3ra08649f20462069https://hdl.handle.net/20.500.12313/5800https://pubs.rsc.org/en/content/articlelanding/2024/ra/d3ra08649fengRoyal Society of ChemistryReino Unido52338522214RSC AdvancesP. C. Poortvliet , K. O'Maley , P. A. Silburn and G. D. Mellick , Front. Neurol., 2020, 11 , 686D. L. M. Radder , I. H. Sturkenboom , M. van Nimwegen , S. H. Keus , B. R. Bloem and N. M. de Vries , Int. J. Neurosci., 2017, 127 , 930 —943J. P. M. Finberg and J. M. Rabey , Front. Pharmacol, 2016, 7 , 340R. T. Bartus , R. L. Dean , B. Beer and A. S. Lippa , Science, 1982, 217 , 408 —417W. Poewe , K. Seppi , C. M. Tanner , G. M. Halliday , P. Brundin , J. Volkmann , A. E. Schrag and A. E. Lang , Nat. Rev. Dis. Primers, 2017, 3 , 1 —21V. A. Panova , S. I. Filimonov , Z. V. Chirkova , M. V. Kabanova , A. A. Shetnev , M. K. Korsakov , A. Petzer , J. P. Petzer and K. Y. Suponitsky , Bioorg. Chem., 2021, 108 , 104563H. Wasan , D. Singh and R. KH , Brain Res. Bull., 2021, 168 , 165 —177F. Stocchi , A. Antonini , D. Berg , B. Bergmans , W. Jost , R. Katzenschlager , J. Kulisevsky , P. Odin , F. Valldeoriola and K. Ray Chaudhuri , NPJ Parkinson's dis., 2022, 8 , 1 —9D. Mishra , A. Fatima , P. Kumar , N. S. Munjal , B. K. Singh and R. Singh , ChemistrySelect, 2022, 7 , 202203060S. Hosseini , S. A. Pourmousavi , M. Mahdavi and P. Taslimi , J. Mol. Struct., 2022, 1255 , 132229L. Camargo-Ayala , L. Prent-Peñaloza , E. Polo-Cuadrado , I. Brito , J. Cisterna , E. Osorio , W. González and M. Gutiérrez , J. Mol. Struct., 2021, 131544W.-H. Liu , L. Guan , D.-H. Zhao , Z.-W. He , Y.-M. Hu , Y.-X. Zhu , L.-J. Zhang , L.-H. Jin , L.-P. Guan and S.-H. Wang , SSRN Electron. J., 2022, 4149179V. R. Pattabiraman and J. W. Bode , Nature, 2011, 480 , 471 —479P. W. Seavill and J. D. Wilden , Green Chem., 2020, 22 , 7737 —7759A. Williams and I. T. Ibrahim , Carbodiimide Chemistry: Recent Advances, 1981, 81 , 589 —636J. R. Dunetz , J. Magano and G. A. Weisenburger , Org. Process Res. Dev., 2016, 20 , 140 —177A. El-Faham and F. Albericio , Chem. Rev., 2011, 111 , 6557 —6602A. Jordan , K. D. Whymark , J. Sydenham and H. F. Sneddon , Green Chem., 2021, 23 , 6405 —6413L. A. Carpino and A. El-Faham , Tetrahedron, 1999, 55 , 6813 —6830F. H. Allen , O. Kennard , D. G. Watson , L. Brammer , A. G. Orpen and R. Taylor , J. Chem. Soc., Perkin trans. 2, 1987, S1 —S19J. Bernstein , R. E. Davis , L. Shimoni and N.-L. Chang , Angew. Chem., Int. Ed. Engl., 1995, 34 , 1555 —1573B. Narayana , H. S. Yathirajan , R. Rathore and C. Glidewell , Acta Crystallogr., Sect. E: Crystallogr. Commun., 2016, 72 , 1270 —1275S.-Y. Son , J. Ma , Y. Kondou , M. Yoshimura , E. Yamashita and T. Tsukihara , Proc. Natl. Acad. Sci. U. S. A., 2008, 105 , 5739 —5744T. Rahman and M. Rahmatullah , Bioorg. Med. Chem. Lett., 2010, 20 , 537 —540C. Binda , M. Aldeco , A. Mattevi and D. E. Edmondson , J. Med. Chem., 2011, 54 , 909 —912F. Nachon , E. Carletti , C. Ronco , M. Trovaslet , Y. Nicolet , L. Jean and P. Y. Renard , Biochem. J., 2013, 453 , 393 —399C. Ronco , R. Foucault , E. Gillon , P. Bohn , F. Nachon , L. Jean and P.-Y. Renard , ChemMedChem, 2011, 6 , 876 —888M. Ahmed , J. B. T. Rocha , M. Corrêa , C. M. Mazzanti , R. F. Zanin , A. L. B. Morsch , V. M. Morsch and M. R. C. Schetinger , Chem.-Biol. Interact., 2006, 162 , 165 —171I. Lukac , P. G. Wyatt , I. H. Gilbert and F. Zuccotto , J. Comput. Aided Mol. 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