Complexation behaviour of piceatannol ligand with Ti(IV) and Zr(IV) metal ions: a combined DFT and deep learning investigation
A theoretical investigation of the metal chelation ability of piceatannol ligand (PIC) with Ti(IV) and Zr(IV) metal ions is undertaken in this work utilizing DFT/B3LYP-GD3/6–31 + G(d,p) level theory in gas and DMSO. PIC is a naturally occurring polyphenolic stilbene having anticancer properties. Int...
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description | A theoretical investigation of the metal chelation ability of piceatannol ligand (PIC) with Ti(IV) and Zr(IV) metal ions is undertaken in this work utilizing DFT/B3LYP-GD3/6–31 + G(d,p) level theory in gas and DMSO. PIC is a naturally occurring polyphenolic stilbene having anticancer properties. Interaction of the deprotonated form of PIC with metal ions forms [TiL
2
] and [ZrL
2
] complexes. The stability of the complexes is evaluated using geometrical parameters, binding energy, and thermodynamic properties like ∆
H
and ∆
G
. The observed results indicate the higher stability of [TiL
2
] complexes. Topology, NCI, and IRI analyses were used to explore the metal–ligand interactions in formed complexes. This establishes the metal–oxygen bonds in both complexes as an ionic bonding domain on the boundary of the intermediate bonding regime, which comprises dative bonding with a weak covalent character. The interaction of PIC with metal ions is less favourable in implicit DMSO. This is due to the presence of a solvent, which may compete with the ligand for interaction with the ion, reducing complex stability. The ligand and complexes are examined against protein kinase B using deep learning–based GNINA 1.0 software, and the results show a higher negative binding affinity of the [TiL
2
] complex in comparison with others. These complexes outperform PIC as an anti-cancer drug candidate by inhibiting Akt kinase. |
doi_str_mv | 10.1007/s11224-023-02153-9 |
format | Article |
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2
] and [ZrL
2
] complexes. The stability of the complexes is evaluated using geometrical parameters, binding energy, and thermodynamic properties like ∆
H
and ∆
G
. The observed results indicate the higher stability of [TiL
2
] complexes. Topology, NCI, and IRI analyses were used to explore the metal–ligand interactions in formed complexes. This establishes the metal–oxygen bonds in both complexes as an ionic bonding domain on the boundary of the intermediate bonding regime, which comprises dative bonding with a weak covalent character. The interaction of PIC with metal ions is less favourable in implicit DMSO. This is due to the presence of a solvent, which may compete with the ligand for interaction with the ion, reducing complex stability. The ligand and complexes are examined against protein kinase B using deep learning–based GNINA 1.0 software, and the results show a higher negative binding affinity of the [TiL
2
] complex in comparison with others. These complexes outperform PIC as an anti-cancer drug candidate by inhibiting Akt kinase.</description><identifier>ISSN: 1040-0400</identifier><identifier>EISSN: 1572-9001</identifier><identifier>DOI: 10.1007/s11224-023-02153-9</identifier><language>eng</language><publisher>New York: Springer US</publisher><subject>Anticancer properties ; Bonding strength ; Chelation ; Chemistry ; Chemistry and Materials Science ; Computer Applications in Chemistry ; Deep learning ; Kinases ; Ligands ; Physical Chemistry ; Stability analysis ; Stilbene ; Theoretical and Computational Chemistry ; Thermodynamic properties ; Topology ; Zirconium</subject><ispartof>Structural chemistry, 2023-12, Vol.34 (6), p.2139-2152</ispartof><rights>The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature 2023. Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c319t-366295d9d19da90823bbd2241132c3733898d7a55586ec7381b102088fe31a6f3</citedby><cites>FETCH-LOGICAL-c319t-366295d9d19da90823bbd2241132c3733898d7a55586ec7381b102088fe31a6f3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s11224-023-02153-9$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11224-023-02153-9$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,780,784,27922,27923,41486,42555,51317</link.rule.ids></links><search><creatorcontrib>U, Neenu Krishna P.</creatorcontrib><creatorcontrib>K, Jalala V.</creatorcontrib><creatorcontrib>K, Muraleedharan</creatorcontrib><title>Complexation behaviour of piceatannol ligand with Ti(IV) and Zr(IV) metal ions: a combined DFT and deep learning investigation</title><title>Structural chemistry</title><addtitle>Struct Chem</addtitle><description>A theoretical investigation of the metal chelation ability of piceatannol ligand (PIC) with Ti(IV) and Zr(IV) metal ions is undertaken in this work utilizing DFT/B3LYP-GD3/6–31 + G(d,p) level theory in gas and DMSO. PIC is a naturally occurring polyphenolic stilbene having anticancer properties. Interaction of the deprotonated form of PIC with metal ions forms [TiL
2
] and [ZrL
2
] complexes. The stability of the complexes is evaluated using geometrical parameters, binding energy, and thermodynamic properties like ∆
H
and ∆
G
. The observed results indicate the higher stability of [TiL
2
] complexes. Topology, NCI, and IRI analyses were used to explore the metal–ligand interactions in formed complexes. This establishes the metal–oxygen bonds in both complexes as an ionic bonding domain on the boundary of the intermediate bonding regime, which comprises dative bonding with a weak covalent character. The interaction of PIC with metal ions is less favourable in implicit DMSO. This is due to the presence of a solvent, which may compete with the ligand for interaction with the ion, reducing complex stability. The ligand and complexes are examined against protein kinase B using deep learning–based GNINA 1.0 software, and the results show a higher negative binding affinity of the [TiL
2
] complex in comparison with others. These complexes outperform PIC as an anti-cancer drug candidate by inhibiting Akt kinase.</description><subject>Anticancer properties</subject><subject>Bonding strength</subject><subject>Chelation</subject><subject>Chemistry</subject><subject>Chemistry and Materials Science</subject><subject>Computer Applications in Chemistry</subject><subject>Deep learning</subject><subject>Kinases</subject><subject>Ligands</subject><subject>Physical Chemistry</subject><subject>Stability analysis</subject><subject>Stilbene</subject><subject>Theoretical and Computational Chemistry</subject><subject>Thermodynamic properties</subject><subject>Topology</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>eNp9ULtOwzAUtRBIlMIPMFligSHgazcPs6FCoVIllsLAYjmx07pK7WCnBRa-HbdBYmO4ug-dh-5B6BzINRCS3wQASkcJoSwWpCzhB2gAaU4TTggcxpmMSBKLHKOTEFbxCBlLB-h77NZtoz9lZ5zFpV7KrXEbj12NW1Np2UlrXYMbs5BW4Q_TLfHcXE5fr_Buf_P7ca072eAoEG6xxJVbl8Zqhe8n8z1Kad3iRktvjV1gY7c6dFFv53iKjmrZBH3224foZfIwHz8ls-fH6fhullQMeJewLKM8VVwBV5KTgrKyVPFhAEYrljNW8ELlMk3TItNVzgoogVBSFLVmILOaDdFFr9t6976J_mIVv7TRUtDIHVFCcxJRtEdV3oXgdS1ab9bSfwkgYpez6HMWMWexz1nwSGI9KUSwXWj_J_0P6weiz37E</recordid><startdate>20231201</startdate><enddate>20231201</enddate><creator>U, Neenu Krishna P.</creator><creator>K, Jalala V.</creator><creator>K, Muraleedharan</creator><general>Springer US</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope></search><sort><creationdate>20231201</creationdate><title>Complexation behaviour of piceatannol ligand with Ti(IV) and Zr(IV) metal ions: a combined DFT and deep learning investigation</title><author>U, Neenu Krishna P. ; K, Jalala V. ; K, Muraleedharan</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c319t-366295d9d19da90823bbd2241132c3733898d7a55586ec7381b102088fe31a6f3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2023</creationdate><topic>Anticancer properties</topic><topic>Bonding strength</topic><topic>Chelation</topic><topic>Chemistry</topic><topic>Chemistry and Materials Science</topic><topic>Computer Applications in Chemistry</topic><topic>Deep learning</topic><topic>Kinases</topic><topic>Ligands</topic><topic>Physical Chemistry</topic><topic>Stability analysis</topic><topic>Stilbene</topic><topic>Theoretical and Computational Chemistry</topic><topic>Thermodynamic properties</topic><topic>Topology</topic><topic>Zirconium</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>U, Neenu Krishna P.</creatorcontrib><creatorcontrib>K, Jalala V.</creatorcontrib><creatorcontrib>K, Muraleedharan</creatorcontrib><collection>CrossRef</collection><jtitle>Structural chemistry</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>U, Neenu Krishna P.</au><au>K, Jalala V.</au><au>K, Muraleedharan</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Complexation behaviour of piceatannol ligand with Ti(IV) and Zr(IV) metal ions: a combined DFT and deep learning investigation</atitle><jtitle>Structural chemistry</jtitle><stitle>Struct Chem</stitle><date>2023-12-01</date><risdate>2023</risdate><volume>34</volume><issue>6</issue><spage>2139</spage><epage>2152</epage><pages>2139-2152</pages><issn>1040-0400</issn><eissn>1572-9001</eissn><abstract>A theoretical investigation of the metal chelation ability of piceatannol ligand (PIC) with Ti(IV) and Zr(IV) metal ions is undertaken in this work utilizing DFT/B3LYP-GD3/6–31 + G(d,p) level theory in gas and DMSO. PIC is a naturally occurring polyphenolic stilbene having anticancer properties. Interaction of the deprotonated form of PIC with metal ions forms [TiL
2
] and [ZrL
2
] complexes. The stability of the complexes is evaluated using geometrical parameters, binding energy, and thermodynamic properties like ∆
H
and ∆
G
. The observed results indicate the higher stability of [TiL
2
] complexes. Topology, NCI, and IRI analyses were used to explore the metal–ligand interactions in formed complexes. This establishes the metal–oxygen bonds in both complexes as an ionic bonding domain on the boundary of the intermediate bonding regime, which comprises dative bonding with a weak covalent character. The interaction of PIC with metal ions is less favourable in implicit DMSO. This is due to the presence of a solvent, which may compete with the ligand for interaction with the ion, reducing complex stability. The ligand and complexes are examined against protein kinase B using deep learning–based GNINA 1.0 software, and the results show a higher negative binding affinity of the [TiL
2
] complex in comparison with others. These complexes outperform PIC as an anti-cancer drug candidate by inhibiting Akt kinase.</abstract><cop>New York</cop><pub>Springer US</pub><doi>10.1007/s11224-023-02153-9</doi><tpages>14</tpages></addata></record> |
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subjects | Anticancer properties Bonding strength Chelation Chemistry Chemistry and Materials Science Computer Applications in Chemistry Deep learning Kinases Ligands Physical Chemistry Stability analysis Stilbene Theoretical and Computational Chemistry Thermodynamic properties Topology Zirconium |
title | Complexation behaviour of piceatannol ligand with Ti(IV) and Zr(IV) metal ions: a combined DFT and deep learning investigation |
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