The design of molecules containing planar tetracoordinate carbon

A novel preference for planar tetracoordination was observed over the conventional tetrahedral arrangement in a new series of C₅H₂, C₅H₄, C₅H₄^1+/2+ and related compounds. The stability of these molecules is assessed with the ring-opening barriers, HOMO-LUMO gap, singlet-triplet energy differences and nucleus independent chemical shift values.     

Solvent‐Induced Helical Assembly and Reversible Chiroptical Switching of Chiral Cyclic‐Dipeptide‐Functionalized Naphthalenediimides

Understanding the roles of various parameters in orchestrating the preferential chiral molecular organization in supramolecular self‐assembly processes is of great significance in designing novel molecular functional systems. Cyclic dipeptide (CDP) chiral auxiliary‐functionalized naphthalenediimides (NCDPs 1 – 6 ) have been prepared and their chiral self‐assembly properties have been investigated. Detailed photophysical and circular dichroism (CD) studies have unveiled the crucial role of the solvent in the chiral aggregation of these NCDPs. NCDPs 1 – 3 form supramolecular helical assemblies and exhibit remarkable chiroptical switching behaviour (M‐ to P‐type) depending on the solvent composition of HFIP and DMSO. The strong influence of solvent composition on the supramolecular chirality of NCDPs has been further corroborated by concentration and solid‐state thin‐film CD studies. The chiroptical switching between supramolecular aggregates of opposite helicity (M and P) has been found to be reversible, and can be achieved through cycles of solvent removal and redissolution in solvent mixtures of specific composition. The control molecular systems (NCDPs 4 – 6 ), with an achiral or D ‐isomer second amino acid in the CDP auxiliary, did not show chiral aggregation properties. The substantial roles of hydrogen bonding and π–π interactions in the assembly of the NCDPs have been validated through nuclear magnetic resonance (NMR), photophysical, and computational studies. Quantum chemical calculations at the ab initio, semiempirical, and density functional theory levels have been performed on model systems to understand the stabilities of the right (P‐) and left (M‐) handed helical supramolecular assemblies and the nature of the intermolecular interactions. This study emphasizes the role of CDP chiral auxiliaries on the solvent‐induced helical assembly and reversible chiroptical switching of naphthalenediimides.     

A computational study of cation-π interactions in polycyclic systems: exploring the dependence on the curvature and electronic factors

Density functional theory (B3LYP) calculations with double and triple-ζ quality basis sets were performed on the Li⁺ and Na⁺ π-complexes of corannulene 2, sumanene 3CH₂, heterosumanenes 3X, triphenylene 4 and heterotrindenes 5X. The metal ions bind to both convex and concave faces of buckybowls, with a consistent preference to bind to the convex surface by about 1-4 kcal/mol. The metal ion complexation with the π-framework of the central six-membered ring span wider range compared to benzene, indicating the control of size, curvature and electronic perturbations over the strength of cation-π interactions. Computations show that the bowl-to-bowl inversion barriers are only slightly altered upon metal complexation, indicating the continuity of bowl-to-bowl inversion despite metal complexation. We have calculated the binding energies of model systems, triphenylene (4) and heterotrindenes (5X), which indicate that the interaction energies are controlled by electronic factors. While the inversion barrier is dependent mainly on the size of the heteroatom, the extent of binding is independent of the size of the atom or the bowl depth.     

Gold‐Palladium Nanocluster Catalysts for Homocoupling: Electronic Structure and Interface Dynamics

The gold‐palladium (Au?Pd) bimetallic nanocluster (NC) catalyst in colloidal phase performs the homocoupling reaction of various aryl chlorides (Ar?Cl) under ambient conditions. We have systematically investigated various aspects of the Au?Pd NC catalysts with respect to this homocoupling reaction by using density functional theory (DFT) calculations, genetic algorithm (GA) approaches, and molecular dynamics (MD) simulations. Our findings include the geometric and electronic structures of the Au?Pd NC, the reactive Pd sites on the NC surface, the electron‐donating effects of surrounding polymer matrix, the reaction mechanism of homocoupling reaction and rate‐determining step, the inverse halogen dependence of the reaction, and the solvation dynamics at interface region between NC and polymer matrix in aqueous solution.     

NMR imino proton exchange experiments on duplex DNA primarily monitor the opening of purine bases

Molecular dynamics simulations were performed to investigate GC and AT base opening events in DNA. Calculated equilibrium constants between the base open (or flipped) and closed states were shown to be in good agreement with experimental data from NMR imino proton exchange experiments. Analysis of the computed results indicates that the equilbrium constants are dominated by the opening of the A and G bases in the AT and GC base pairs, respectively. Thus, the present results predict that NMR imino proton exchange experiments of base opening are primarily monitoring the opening of purine bases.     

A theoretical study of the structures, energetics, stabilities, reactivities, and out-of-plane distortive tendencies of skeletally substituted benzenes (CH)(5)XH and (CH)(4)(XH)(2) (X = B(-), N(+), Al(-), Si, P(+), Ga(-), Ge, and As(+)).

Ab initio molecular orbital theory at Hartree-Fock (HF), post-Hartree-Fock (MP2 and CCSD(T)), and the hybrid density functional theory (B3LYP) calculations were done on the mono-(CH)(5)XH and diskeletally substituted (CH)(4)(XH)(2) benzenes (X = B(-), N(+), Al(-), Si, P(+), Ga(-), Ge, and As(+)). The computed relative energies of the disubstituted isomers show interesting trends. While the ortho-isomer is the most stable for X = Ga(-), Ge, and As(+), meta was found to be the most stable for X = B(-), N(+), Al(-) and Si, and para was found to be the most stable for X = P(+). Various intricate factors that govern the relative stabilities, such as the sum of bond strengths in the twin Kekule forms, rule of topological charge stabilization (TCS), and electrostatic repulsion were critically examined. The sum of bond strengths in the twin Kekule forms was proved to be quite a successful measure in predicting the relative stability orders between ortho- and meta-/para-isomers. The rule of TCS breaks down especially in the presence of overwhelming factors such as the differences in the cumulative bond strengths of the two positional isomers; however, the stability ordering between the para- and meta-isomers is successfully predicted in most cases. The tendency for ring puckering increases a great deal especially when the substituents are from 3rd or 4th row. Extension of the popular inverse relationship between the thermodynamic stability and reactivity was found to be inapplicable for this class of compounds. The computed singlet-triplet energy differences and the chemical hardness (eta) values indicate that the skeletal substitution weakens the pi-strength of the benzenoid system and increases their reactivity.     

Facile valence isomerization among bis(silacyclopropenyl), disila(Dewar benzene) and disilabenzvalene

Hybrid density functional theory (B3LYP) and ab initio (CCSD(T)) calculations were performed to explore the reaction energy pathways of the valence isomerizations among the disilabenzene isomers, namely, bis(silacyclopropenyl) (1), disila(Dewar benzene) (3) and disilabenzvalene (4). The computational study predicts that the interconversion of 1 to 3 and 4 occurs spontaneously. However, the interconversion between Dewar benzene (3) and benzvalene (4) analogs is a multistep process involving a new intermediate structure 2a, with energy barriers lying above 30 kcal/mol in energy compared to 3 and 4.     

A lipophilic hexaporphyrin assembly supported on a stannoxane core

Lipophilic hexaporphyrin free-base and copper-metalated assemblies supported on a Sn6O6 core have been synthesized and characterized. The nuclease activity of the copper derivative has been studied.     

A system with three contiguous planar tetracoordinate carbons is viable: a computational study on a C6H6 isomer

Ab initio and density functional theory calculations indicate that a benzene dication isomer (1: C₆H₆²⁼) with three contiguous planar tetracoordinate carbons is at a minimum on the potential energy surface. The remarkable preference for the planar structure for 1 is traced to the aromatic stabilization present in the three membered ring formed by the three planar tetracoordinate carbon atoms.