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Modeling Interactions between Macrocyclic Cage Molecules and Substances of Chemical/Pharmacological Interest

A special issue of Molecules (ISSN 1420-3049). This special issue belongs to the section "Computational and Theoretical Chemistry".

Deadline for manuscript submissions: 31 July 2025 | Viewed by 1268

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Faculty of Chemistry and Pharmacy, Sofia University “St. Kliment Ohridski”, 1164 Sofia, Bulgaria
Interests: computational chemistry/biochemistry/biophysics; molecular modeling; metals in biology and medicine
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Special Issue Information

Dear Colleagues,

Formation of supramolecular complexes through host-guest interactions is one of the most efficient and widespread ways to deliver or activate a guest molecule by modulating its properties. Encapsulating compounds of practical/scientific interest (“guests”) by specific macrocyclic cavitands (“hosts”) has proven advantageous for many fields of science/industry such as pharmacy, food industry, cosmetics, chemical research, photochemistry and dye tuning. There is a rich diversity of guest species as they can be metals, gases, drugs, various organic and inorganic compounds. Among many host molecules, cucurbiturils, calixarenes, cyclodextrins and crown ethers, have enjoyed broad interest by both practitioners and researchers. 

Modelling the host-guest interactions by computational methods (ab initio/DFT, molecular dynamics) is of particular interest as this approach allows for deciphering, at atomic level, of the major physico-chemical factors controlling the encapsulation process. Also, these have the power to predict the structure and properties of new supramolecular complexes thus guiding the practitioners in their quest for synthesising novel structures with desired characteristics.

In this special issue of Molecules we invite contributions employing computational/theoretical approaches that shed light on the intimate mechanism of the host-guest interactions and/or provide insights for engineering novel supramolecular structures with preprogrammed  properties.

Prof. Dr. Todor Dudev
Guest Editor

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Keywords

  • macrocyclic cage molecules
  • cyclodextrins
  • bambusurils
  • calixarenes
  • DFT/ab initio calculations
  • molecular dynamics simulations
  • drug delivery

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Published Papers (1 paper)

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Research

16 pages, 2731 KiB  
Article
Naphthalimide-Based Amphiphiles: Synthesis and DFT Studies of the Aggregation and Interaction of a Simplified Model System with Water Molecules
by Vladislava Petkova, Denitsa Anastasova, Stefan Dobrev, Monika Mutovska, Nikoleta Kircheva, Valya Nikolova, Spas D. Kolev, Stanimir Stoyanov, Yulian Zagranyarski, Todor Dudev and Silvia Angelova
Molecules 2024, 29(17), 4204; https://doi.org/10.3390/molecules29174204 - 4 Sep 2024
Viewed by 1040
Abstract
Systems containing amphiphilic/pathic molecules have the tremendous capacity to self-assemble under appropriate conditions to form morphologies with well-defined structural order (systematic arrangement), nanometer-scale dimensions, and unique properties. In this work, the synthesis of novel naphthalimide-based amphiphilic probes that have 1,8-naphthalimide as the fluorescence [...] Read more.
Systems containing amphiphilic/pathic molecules have the tremendous capacity to self-assemble under appropriate conditions to form morphologies with well-defined structural order (systematic arrangement), nanometer-scale dimensions, and unique properties. In this work, the synthesis of novel naphthalimide-based amphiphilic probes that have 1,8-naphthalimide as the fluorescence signal reporting group, octyl as hydrophobic head, and PEG as hydrophilic tail, is described. These designed molecules represent a new class of self-assembling structures with some promising features. The lack of literature data on the use of 1,8-naphthalimides with cyclic and acyclic hydrophilic PEG fragments as self-assembling structures gives us the opportunity to initiate a new field in materials science. The successful synthesis of such structures is fundamental to synthetic chemistry, and computational studies of the aggregation and binding of water molecules shed light on the ability of these new systems to function as membrane water channels. This study not only expands the list of 1,8-naphthalimide derivatives but may also serve as a new platform for the development of membrane additives based on PEG-functionalized naphthalimides. Full article
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