In silico analyses of betulin: DFT studies, corrosion inhibition properties, ADMET prediction, and molecular docking with a series of SARS-CoV-2 and monkeypox proteins
We report detailed computational studies of betulin — a pentacyclic naturally occuring triterpene, which is a precursor for a broad family of biologically active derivatives. The structure, electronic, and optical properties of betulin were studied by the density functional theory (DFT) calculations...
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Veröffentlicht in: | Structural chemistry 2023-08, Vol.34 (4), p.1545-1556 |
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creator | Burkhanova, Tatyana M. Krysantieva, Alena I. Babashkina, Maria G. Konyaeva, Irina A. Monina, Lyudmila N. Goncharenko, Anastasiya N. Safin, Damir A. |
description | We report detailed computational studies of betulin — a pentacyclic naturally occuring triterpene, which is a precursor for a broad family of biologically active derivatives. The structure, electronic, and optical properties of betulin were studied by the density functional theory (DFT) calculations in gas phase. The reactivity and the reactive centers of betulin were revealed through its global reactivity descriptors and molecular electrostatic potential (MEP). The DFT calculations were also applied to probe betulin as a potential corrosion inhibitor for some important metals used in implants. Electron charge transfer from the molecule of betulin to the surface of all the examined metals (Ti, Fe, Zr, Co, Cu, Cr, Ni, Mn, Mo, Zn, Al, W, Ag, Au) was revealed, of which the best results were obtained for Ni, Au and Co. Bioavailability, druggability as well as absorption, distribution, metabolism, excretion and toxicity (ADMET) properties of betulin were evaluated using the SwissADME, BOILED-Egg and ProTox-II tools. Molecular docking was applied to examine the influence of the title compound on a series of the SARS-CoV-2 proteins as well as one of the monkeypox proteins. It was established that betulin is active against all the applied proteins with the best binding affinity with papain-like protease (PLpro) and spike protein (native) of SARS-CoV-2. The title compound is also active against the studied monkeypox protein. Interaction of betulin with papain-like protease (PLpro) was studied using molecular dynamics simulations. |
doi_str_mv | 10.1007/s11224-022-02079-8 |
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The structure, electronic, and optical properties of betulin were studied by the density functional theory (DFT) calculations in gas phase. The reactivity and the reactive centers of betulin were revealed through its global reactivity descriptors and molecular electrostatic potential (MEP). The DFT calculations were also applied to probe betulin as a potential corrosion inhibitor for some important metals used in implants. Electron charge transfer from the molecule of betulin to the surface of all the examined metals (Ti, Fe, Zr, Co, Cu, Cr, Ni, Mn, Mo, Zn, Al, W, Ag, Au) was revealed, of which the best results were obtained for Ni, Au and Co. Bioavailability, druggability as well as absorption, distribution, metabolism, excretion and toxicity (ADMET) properties of betulin were evaluated using the SwissADME, BOILED-Egg and ProTox-II tools. Molecular docking was applied to examine the influence of the title compound on a series of the SARS-CoV-2 proteins as well as one of the monkeypox proteins. It was established that betulin is active against all the applied proteins with the best binding affinity with papain-like protease (PLpro) and spike protein (native) of SARS-CoV-2. The title compound is also active against the studied monkeypox protein. Interaction of betulin with papain-like protease (PLpro) was studied using molecular dynamics simulations.</description><identifier>ISSN: 1040-0400</identifier><identifier>EISSN: 1572-9001</identifier><identifier>DOI: 10.1007/s11224-022-02079-8</identifier><identifier>PMID: 36320318</identifier><language>eng</language><publisher>New York: Springer US</publisher><subject>Aluminum ; Analysis ; Bioavailability ; Charge transfer ; Chemical inhibitors ; Chemistry ; Chemistry and Materials Science ; Chromium ; Computer Applications in Chemistry ; Copper ; Corrosion and anti-corrosives ; Corrosion inhibitors ; Corrosion potential ; Density functional theory ; Density functionals ; Electron transport ; Health aspects ; Human monkeypox ; Iron ; Manganese ; Mathematical analysis ; Molecular docking ; Molecular dynamics ; Molybdenum ; Mpox ; Nickel ; Optical properties ; Original Research ; Papain ; Physical Chemistry ; Protease ; Protein binding ; Proteins ; Severe acute respiratory syndrome coronavirus 2 ; Theoretical and Computational Chemistry ; Titanium ; Toxicity ; Tungsten ; Vapor phases ; Zirconium</subject><ispartof>Structural chemistry, 2023-08, Vol.34 (4), p.1545-1556</ispartof><rights>The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature 2022. 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The structure, electronic, and optical properties of betulin were studied by the density functional theory (DFT) calculations in gas phase. The reactivity and the reactive centers of betulin were revealed through its global reactivity descriptors and molecular electrostatic potential (MEP). The DFT calculations were also applied to probe betulin as a potential corrosion inhibitor for some important metals used in implants. Electron charge transfer from the molecule of betulin to the surface of all the examined metals (Ti, Fe, Zr, Co, Cu, Cr, Ni, Mn, Mo, Zn, Al, W, Ag, Au) was revealed, of which the best results were obtained for Ni, Au and Co. Bioavailability, druggability as well as absorption, distribution, metabolism, excretion and toxicity (ADMET) properties of betulin were evaluated using the SwissADME, BOILED-Egg and ProTox-II tools. Molecular docking was applied to examine the influence of the title compound on a series of the SARS-CoV-2 proteins as well as one of the monkeypox proteins. It was established that betulin is active against all the applied proteins with the best binding affinity with papain-like protease (PLpro) and spike protein (native) of SARS-CoV-2. The title compound is also active against the studied monkeypox protein. Interaction of betulin with papain-like protease (PLpro) was studied using molecular dynamics simulations.</description><subject>Aluminum</subject><subject>Analysis</subject><subject>Bioavailability</subject><subject>Charge transfer</subject><subject>Chemical inhibitors</subject><subject>Chemistry</subject><subject>Chemistry and Materials Science</subject><subject>Chromium</subject><subject>Computer Applications in Chemistry</subject><subject>Copper</subject><subject>Corrosion and anti-corrosives</subject><subject>Corrosion inhibitors</subject><subject>Corrosion potential</subject><subject>Density functional theory</subject><subject>Density functionals</subject><subject>Electron transport</subject><subject>Health aspects</subject><subject>Human monkeypox</subject><subject>Iron</subject><subject>Manganese</subject><subject>Mathematical analysis</subject><subject>Molecular docking</subject><subject>Molecular dynamics</subject><subject>Molybdenum</subject><subject>Mpox</subject><subject>Nickel</subject><subject>Optical properties</subject><subject>Original Research</subject><subject>Papain</subject><subject>Physical Chemistry</subject><subject>Protease</subject><subject>Protein binding</subject><subject>Proteins</subject><subject>Severe acute respiratory syndrome coronavirus 2</subject><subject>Theoretical and Computational Chemistry</subject><subject>Titanium</subject><subject>Toxicity</subject><subject>Tungsten</subject><subject>Vapor phases</subject><subject>Zirconium</subject><issn>1040-0400</issn><issn>1572-9001</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2023</creationdate><recordtype>article</recordtype><recordid>eNp9Udtu1DAQtRCIXuAHeECWeG2KL7k4vK22LVQqQqILr5Zjj7duE3trJ4L9ov4m3mahQkLIGnk0PueMZw5Cbyg5pYQ07xOljJUFYSwHadpCPEOHtGpY0RJCn-eclKTIQQ7QUUq3uUhrXr1EB7zmjHAqDtHDpcfJ9U4HrLzqtwkSDhZ3ME698x_w2cUKp3EyDtIJ1iHGkFzw2Pkb17lxl25i2EAcHwGLs8_nq1wB4_Tu8SSLGjyEHvTUq4hN0HfOr_EPN95ghRNEN_e7Xny9Lpbhe8H2DH8H2034uVMfwfn0Cr2wqk_wen8fo28X56vlp-Lqy8fL5eKq0KWox6ImNVeK5fkotMA4UAVc0brtqBFdJywY3Rlalg0RVlhCS9Ct5VYRUxvGDT9G72bd3Ph-gjTK2zDFvJkkmSgJ51VVNk-otepBOm_DGJUeXNJy0VRNW1Vt22bU6T9Q-RgY8sI9WJfrfxHYTNB5zSmClZvoBhW3khK5s1zOlstsuXy0XIpMerv_8dQNYP5QfnucAXwGpPzk1xCfRvqP7C_znrcR</recordid><startdate>20230801</startdate><enddate>20230801</enddate><creator>Burkhanova, Tatyana M.</creator><creator>Krysantieva, Alena I.</creator><creator>Babashkina, Maria G.</creator><creator>Konyaeva, Irina A.</creator><creator>Monina, Lyudmila N.</creator><creator>Goncharenko, Anastasiya N.</creator><creator>Safin, Damir A.</creator><general>Springer US</general><general>Springer</general><general>Springer Nature B.V</general><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope></search><sort><creationdate>20230801</creationdate><title>In silico analyses of betulin: DFT studies, corrosion inhibition properties, ADMET prediction, and molecular docking with a series of SARS-CoV-2 and monkeypox proteins</title><author>Burkhanova, Tatyana M. ; Krysantieva, Alena I. ; Babashkina, Maria G. ; Konyaeva, Irina A. ; Monina, Lyudmila N. ; Goncharenko, Anastasiya N. ; Safin, Damir A.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c486t-6063aa23631e9e23e1ae3a169b1d8bb8fedcbd144708f8f014ec9f3fa0d6d23d3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2023</creationdate><topic>Aluminum</topic><topic>Analysis</topic><topic>Bioavailability</topic><topic>Charge transfer</topic><topic>Chemical inhibitors</topic><topic>Chemistry</topic><topic>Chemistry and Materials Science</topic><topic>Chromium</topic><topic>Computer Applications in Chemistry</topic><topic>Copper</topic><topic>Corrosion and anti-corrosives</topic><topic>Corrosion inhibitors</topic><topic>Corrosion potential</topic><topic>Density functional theory</topic><topic>Density functionals</topic><topic>Electron transport</topic><topic>Health aspects</topic><topic>Human monkeypox</topic><topic>Iron</topic><topic>Manganese</topic><topic>Mathematical analysis</topic><topic>Molecular docking</topic><topic>Molecular dynamics</topic><topic>Molybdenum</topic><topic>Mpox</topic><topic>Nickel</topic><topic>Optical properties</topic><topic>Original Research</topic><topic>Papain</topic><topic>Physical Chemistry</topic><topic>Protease</topic><topic>Protein binding</topic><topic>Proteins</topic><topic>Severe acute respiratory syndrome coronavirus 2</topic><topic>Theoretical and Computational Chemistry</topic><topic>Titanium</topic><topic>Toxicity</topic><topic>Tungsten</topic><topic>Vapor phases</topic><topic>Zirconium</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Burkhanova, Tatyana M.</creatorcontrib><creatorcontrib>Krysantieva, Alena I.</creatorcontrib><creatorcontrib>Babashkina, Maria G.</creatorcontrib><creatorcontrib>Konyaeva, Irina A.</creatorcontrib><creatorcontrib>Monina, Lyudmila N.</creatorcontrib><creatorcontrib>Goncharenko, Anastasiya N.</creatorcontrib><creatorcontrib>Safin, Damir A.</creatorcontrib><collection>PubMed</collection><collection>CrossRef</collection><jtitle>Structural chemistry</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Burkhanova, Tatyana M.</au><au>Krysantieva, Alena I.</au><au>Babashkina, Maria G.</au><au>Konyaeva, Irina A.</au><au>Monina, Lyudmila N.</au><au>Goncharenko, Anastasiya N.</au><au>Safin, Damir A.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>In silico analyses of betulin: DFT studies, corrosion inhibition properties, ADMET prediction, and molecular docking with a series of SARS-CoV-2 and monkeypox proteins</atitle><jtitle>Structural chemistry</jtitle><stitle>Struct Chem</stitle><addtitle>Struct Chem</addtitle><date>2023-08-01</date><risdate>2023</risdate><volume>34</volume><issue>4</issue><spage>1545</spage><epage>1556</epage><pages>1545-1556</pages><issn>1040-0400</issn><eissn>1572-9001</eissn><abstract>We report detailed computational studies of betulin — a pentacyclic naturally occuring triterpene, which is a precursor for a broad family of biologically active derivatives. The structure, electronic, and optical properties of betulin were studied by the density functional theory (DFT) calculations in gas phase. The reactivity and the reactive centers of betulin were revealed through its global reactivity descriptors and molecular electrostatic potential (MEP). The DFT calculations were also applied to probe betulin as a potential corrosion inhibitor for some important metals used in implants. Electron charge transfer from the molecule of betulin to the surface of all the examined metals (Ti, Fe, Zr, Co, Cu, Cr, Ni, Mn, Mo, Zn, Al, W, Ag, Au) was revealed, of which the best results were obtained for Ni, Au and Co. Bioavailability, druggability as well as absorption, distribution, metabolism, excretion and toxicity (ADMET) properties of betulin were evaluated using the SwissADME, BOILED-Egg and ProTox-II tools. Molecular docking was applied to examine the influence of the title compound on a series of the SARS-CoV-2 proteins as well as one of the monkeypox proteins. It was established that betulin is active against all the applied proteins with the best binding affinity with papain-like protease (PLpro) and spike protein (native) of SARS-CoV-2. The title compound is also active against the studied monkeypox protein. Interaction of betulin with papain-like protease (PLpro) was studied using molecular dynamics simulations.</abstract><cop>New York</cop><pub>Springer US</pub><pmid>36320318</pmid><doi>10.1007/s11224-022-02079-8</doi><tpages>12</tpages><oa>free_for_read</oa></addata></record> |
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subjects | Aluminum Analysis Bioavailability Charge transfer Chemical inhibitors Chemistry Chemistry and Materials Science Chromium Computer Applications in Chemistry Copper Corrosion and anti-corrosives Corrosion inhibitors Corrosion potential Density functional theory Density functionals Electron transport Health aspects Human monkeypox Iron Manganese Mathematical analysis Molecular docking Molecular dynamics Molybdenum Mpox Nickel Optical properties Original Research Papain Physical Chemistry Protease Protein binding Proteins Severe acute respiratory syndrome coronavirus 2 Theoretical and Computational Chemistry Titanium Toxicity Tungsten Vapor phases Zirconium |
title | In silico analyses of betulin: DFT studies, corrosion inhibition properties, ADMET prediction, and molecular docking with a series of SARS-CoV-2 and monkeypox proteins |
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