{"title":"联苯附加吡咯烷配合物的合成、结构、DNA对接、药代动力学/ADMET、Hirshfeld表面分析和抗菌研究。","authors":"Koyal Pattanaik, Popuri Sureshbabu, Elanseralathan Sujitha, Suman Bhattacharya, Shahulhameed Sabiah","doi":"10.1080/07391102.2025.2508921","DOIUrl":null,"url":null,"abstract":"<p><p>Biphenyl anchored pyrrolidine complexes [MLCl<sub>2</sub>], [where M = Co (<b>1</b>), Ni (<b>2</b>), Cu (<b>3</b>) and Zn (<b>4</b>); <b><i>L</i> </b>=<b> </b>6-(2-(pyrrolidin-1-yl)ethyl)-6,7-dihydro-5H-dibenzo[c,e]azepine] were synthesized and characterized by elemental analysis, UV-Vis, FT-IR, ESI-MS, and NMR (in case of <b>4</b>). Single crystal XRD revealed that all the complexes adopt distorted tetrahedral geometry. DFT calculations with their relative energies were compared with XRD structure. Absorption, oscillator strength, excitation energy, molecular orbital contributions were obtained from TDDFT calculation. The computed UV-Vis absorption data is comparable with experimental UV-Vis data. Molecular docking studies verified that all complexes strongly bind with DNA (PDB ID: 1BNA) through major groove interactions. The ligand and the complexes exhibit an elevated permeability of the blood-brain barrier and GI absorption, according to the SwissADME prediction criteria. The values of skin permeability (logKp) for the ligand and complexes <b>1-4</b> were determined to be -5.61, -5.27, -5.27, -5.30, and -5.31 cms<sup>-1</sup>, respectively. All the complexes and the ligand were projected to function as a biological barrier, a transporter, and a substrate of P-glycoprotein (P-gp), which is responsible for the ADME of medications. Using Hirshfeld surface investigation, the intermolecular interactions within the crystal network were identified to support the prominent contribution from H∙∙∙∙∙H interactions, followed by Cl∙∙∙∙∙H and C∙∙∙∙∙H interactions, respectively. In the preliminary investigations, all the complexes displayed significant antibacterial properties against both Gram-positive and Gram-negative bacterial strains such as Staphylococcus aureus and Escherichia coli, respectively; those were obtained from human clinical isolates. Notably, the copper(II) complex, <b>3</b> showed better antibacterial activity in comparison to other complexes.</p>","PeriodicalId":15272,"journal":{"name":"Journal of Biomolecular Structure & Dynamics","volume":" ","pages":"1-20"},"PeriodicalIF":2.7000,"publicationDate":"2025-06-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Synthesis, structure, DNA docking, pharmacokinetics/ADMET, Hirshfeld surface analysis, and antimicrobial studies on biphenyl appended pyrrolidine complexes.\",\"authors\":\"Koyal Pattanaik, Popuri Sureshbabu, Elanseralathan Sujitha, Suman Bhattacharya, Shahulhameed Sabiah\",\"doi\":\"10.1080/07391102.2025.2508921\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>Biphenyl anchored pyrrolidine complexes [MLCl<sub>2</sub>], [where M = Co (<b>1</b>), Ni (<b>2</b>), Cu (<b>3</b>) and Zn (<b>4</b>); <b><i>L</i> </b>=<b> </b>6-(2-(pyrrolidin-1-yl)ethyl)-6,7-dihydro-5H-dibenzo[c,e]azepine] were synthesized and characterized by elemental analysis, UV-Vis, FT-IR, ESI-MS, and NMR (in case of <b>4</b>). Single crystal XRD revealed that all the complexes adopt distorted tetrahedral geometry. DFT calculations with their relative energies were compared with XRD structure. Absorption, oscillator strength, excitation energy, molecular orbital contributions were obtained from TDDFT calculation. The computed UV-Vis absorption data is comparable with experimental UV-Vis data. Molecular docking studies verified that all complexes strongly bind with DNA (PDB ID: 1BNA) through major groove interactions. The ligand and the complexes exhibit an elevated permeability of the blood-brain barrier and GI absorption, according to the SwissADME prediction criteria. The values of skin permeability (logKp) for the ligand and complexes <b>1-4</b> were determined to be -5.61, -5.27, -5.27, -5.30, and -5.31 cms<sup>-1</sup>, respectively. All the complexes and the ligand were projected to function as a biological barrier, a transporter, and a substrate of P-glycoprotein (P-gp), which is responsible for the ADME of medications. Using Hirshfeld surface investigation, the intermolecular interactions within the crystal network were identified to support the prominent contribution from H∙∙∙∙∙H interactions, followed by Cl∙∙∙∙∙H and C∙∙∙∙∙H interactions, respectively. In the preliminary investigations, all the complexes displayed significant antibacterial properties against both Gram-positive and Gram-negative bacterial strains such as Staphylococcus aureus and Escherichia coli, respectively; those were obtained from human clinical isolates. Notably, the copper(II) complex, <b>3</b> showed better antibacterial activity in comparison to other complexes.</p>\",\"PeriodicalId\":15272,\"journal\":{\"name\":\"Journal of Biomolecular Structure & Dynamics\",\"volume\":\" \",\"pages\":\"1-20\"},\"PeriodicalIF\":2.7000,\"publicationDate\":\"2025-06-13\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Journal of Biomolecular Structure & Dynamics\",\"FirstCategoryId\":\"99\",\"ListUrlMain\":\"https://doi.org/10.1080/07391102.2025.2508921\",\"RegionNum\":3,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q3\",\"JCRName\":\"BIOCHEMISTRY & MOLECULAR BIOLOGY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Biomolecular Structure & Dynamics","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1080/07391102.2025.2508921","RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q3","JCRName":"BIOCHEMISTRY & MOLECULAR BIOLOGY","Score":null,"Total":0}
引用次数: 0
摘要
联苯锚定吡咯烷配合物[MLCl2],[其中M = Co (1), Ni (2), Cu(3)和Zn (4);合成了L = 6-(2-(吡咯烷-1-基)乙基)-6,7-二氢- 5h -二苯并[c,e]氮平,并通过元素分析、UV-Vis、FT-IR、ESI-MS和NMR(4)对其进行了表征。单晶XRD分析表明,配合物均呈畸变四面体结构。将DFT计算的相对能量与XRD结构进行了比较。通过TDDFT计算得到了吸收、振子强度、激发能、分子轨道贡献。计算的紫外-可见吸收数据与实验的紫外-可见吸收数据具有可比性。分子对接研究证实,所有复合物都通过主要凹槽相互作用与DNA (PDB ID: 1BNA)强结合。根据SwissADME预测标准,配体和复合物表现出血脑屏障通透性和胃肠道吸收的升高。配体和配合物1-4的皮肤渗透性(logKp)值分别为-5.61、-5.27、-5.27、-5.30和-5.31 cm -1。所有复合物和配体都被预测为p -糖蛋白(P-gp)的生物屏障、转运体和底物,p -糖蛋白负责药物的ADME。利用Hirshfeld表面调查,确定了晶体网络内的分子间相互作用,以支持H∙∙∙∙H相互作用的突出贡献,其次分别是Cl∙∙∙H和C∙∙H相互作用。在初步研究中,所有复合物分别对革兰氏阳性和革兰氏阴性菌株(如金黄色葡萄球菌和大肠杆菌)均表现出显著的抗菌性能;这些是从人类临床分离株中获得的。值得注意的是,铜(II)配合物,3比其他配合物具有更好的抗菌活性。
Synthesis, structure, DNA docking, pharmacokinetics/ADMET, Hirshfeld surface analysis, and antimicrobial studies on biphenyl appended pyrrolidine complexes.
Biphenyl anchored pyrrolidine complexes [MLCl2], [where M = Co (1), Ni (2), Cu (3) and Zn (4); L=6-(2-(pyrrolidin-1-yl)ethyl)-6,7-dihydro-5H-dibenzo[c,e]azepine] were synthesized and characterized by elemental analysis, UV-Vis, FT-IR, ESI-MS, and NMR (in case of 4). Single crystal XRD revealed that all the complexes adopt distorted tetrahedral geometry. DFT calculations with their relative energies were compared with XRD structure. Absorption, oscillator strength, excitation energy, molecular orbital contributions were obtained from TDDFT calculation. The computed UV-Vis absorption data is comparable with experimental UV-Vis data. Molecular docking studies verified that all complexes strongly bind with DNA (PDB ID: 1BNA) through major groove interactions. The ligand and the complexes exhibit an elevated permeability of the blood-brain barrier and GI absorption, according to the SwissADME prediction criteria. The values of skin permeability (logKp) for the ligand and complexes 1-4 were determined to be -5.61, -5.27, -5.27, -5.30, and -5.31 cms-1, respectively. All the complexes and the ligand were projected to function as a biological barrier, a transporter, and a substrate of P-glycoprotein (P-gp), which is responsible for the ADME of medications. Using Hirshfeld surface investigation, the intermolecular interactions within the crystal network were identified to support the prominent contribution from H∙∙∙∙∙H interactions, followed by Cl∙∙∙∙∙H and C∙∙∙∙∙H interactions, respectively. In the preliminary investigations, all the complexes displayed significant antibacterial properties against both Gram-positive and Gram-negative bacterial strains such as Staphylococcus aureus and Escherichia coli, respectively; those were obtained from human clinical isolates. Notably, the copper(II) complex, 3 showed better antibacterial activity in comparison to other complexes.
期刊介绍:
The Journal of Biomolecular Structure and Dynamics welcomes manuscripts on biological structure, dynamics, interactions and expression. The Journal is one of the leading publications in high end computational science, atomic structural biology, bioinformatics, virtual drug design, genomics and biological networks.