Self-assembled organic nanostructures: effect of substituents on the morphology.

Three perylene-3,4;9,10-tetracarboxydiimide (PTCDI) compounds with two dodecyloxy or thiododecyl chains attached at the bay positions of the perylene ring, PTCDIs 1-3, were fabricated into nanoassemblies by a solution injection method. The morphologies of these self-assembled nanostructures were determined by transmission electronic microscopy (TEM), scanning electronic microscopy (SEM), and atomic force microscopy (AFM). PTCDI compound 1, with two dodecyloxy groups, forms long, flexible nanowires with an aspect ratio of over 200, while analogue 3, with two thiododecyl groups, self-assembles into spherical particles. In line with these results, PTCDI 2, with one dodecyloxy group and one thiododecyl group, forms nanorods with an aspect ratio of around 20. Electronic absorption and fluorescence spectroscopy results reveal the formation of H-aggregates in the nanostructures of these PTCDI compounds owing to the pi-pi interaction between the substituted perylene molecules and also suggest a decreasing pi-pi interaction in the order 1>2>3, which corresponds well with the morphology of the corresponding nanoassemblies. On the basis of DFT calculations, the effect of different substituents at the bay positions of the perylene ring on the pi-pi interaction between substituted perylene molecules and the morphology of self-assembled nanostructures is rationalized by the differing degree of twisting of the conjugated perylene system caused by the different substituents and the different bending of the alkoxy and thioalkyl groups with respect to the plane of the naphthalene.     

Vapor-phase Beckmann rearrangement of oxime molecules over H-Faujasite zeolite.

The Beckmann rearrangement (BR) plays an important role in a variety of industries. The mechanism of this reaction rearrangement of oximes with different molecular sizes, specifically, the oximes of formaldehyde (H₂C?NOH), Z‐acetaldehyde (CH₃HC?NOH), E‐acetaldehyde (CH₃HC?NOH) and acetone (CH₃)₂C?NOH, catalyzed by the Faujasite zeolite is investigated by both the quantum cluster and embedded cluster approaches at the B3LYP level of theory using the 6‐31G (d,p) basis set. To enhance the energetic properties, single point calculations are undertaken at MP2/6‐311G(d,p). The rearrangement step, using the bare cluster model, is the rate determining step of the entire reaction of these oxime molecules of which the energy barrier is between 50–70 kcal mol^?1. The more accurate embedded cluster model, in which the effect of the zeolitic framework is included, yields as the rate determining step, the formaldehyde oxime reaction rearrangement with an energy barrier of 50.4 kcal mol^?1. With the inclusion of the methyl substitution at the carbon‐end of formaldehyde oxime, the rate determining step of the reaction becomes the 1,2 H‐shift step for Z‐acetaldehyde oxime (30.5 kcal mol^?1) and acetone oxime (31.2 kcal mol^?1), while, in the E‐acetaldehyde oxime, the rate determining step is either the 1,2 H‐shift (26.2 kcal mol^?1) or the rearrangement step (26.6 kcal mol^?1). These results signify the important role that the effect of the zeolite framework plays in lowering the activation energy by stabilizing all of the ionic species in the process. It should, however, be noted that the sizeable turnover of a reaction catalyzed by the Brønsted acid site might be delayed by the quantitatively high desorption energy of the product and readsorption of the reactant at the active center.     

Supramolecular switches based on the guanine-cytosine (GC) Watson-Crick pair: effect of neutral and ionic substituents

We have theoretically analyzed Watson-Crick guanine-cytosine (GC) base pairs in which purine-C8 and/or pyrimidine-C6 positions carry a substituent X = NH(-), NH(2), NH(3) (+) (N series), O(-), OH, or OH(2) (+) (O series), using the generalized gradient approximation (GGA) of density functional theory at the BP86/TZ2P level. The purpose is to study the effects on structure and hydrogen-bond strength if X= H is substituted by an anionic, neutral, or cationic substituent. We found that replacing X = H by a neutral substituent has relatively small effects. Introducing a charged substituent, on the other hand, led to substantial and characteristic changes in hydrogen-bond lengths, strengths, and hydrogen-bonding mechanism. In general, introducing an anionic substituent reduces the hydrogen-bond-donating and increases the hydrogen-bond-accepting capabilities of a DNA base, and vice versa for a cationic substituent. Thus, along both the N and O series of substituents, the geometric shape and bond strength of our DNA base pair can be chemically switched between three states, thus yielding a chemically controlled supramolecular switch. Interestingly, the orbital-interaction component in some of these hydrogen bonds was found to contribute to more than 49 % of the attractive interactions and is thus virtually equal in magnitude to the electrostatic component, which provides the other (somewhat less than) 51 % of the attraction.     

Theoretical study of rhodium(I) carbene complexes: the structural versatility of phosphino- compared with aminocarbenes

Density functional calculations are reported for complexes of general formula [(carbene)RhClL(2)] featuring model phosphino- and aminocarbenes. Both the cis and trans isomers of the rhodium(I) eta(1)-complexes (1-9) were investigated, and the influence of the rhodium co-ligands (L=ethylene, phosphine, or carbon monoxide) was evaluated. In the case of phosphinocarbenes and carbon monoxide as a ligand, a somewhat unusual coordination mode was observed, in which a significant intramolecular Cl-->C(carbene) interaction is present. The propensity of phosphino- and aminocarbenes to behave as four electron donors was also investigated both structurally and energetically on the related eta(2)-complexes 10-18. These results as a whole emphasize the structural versatility of phosphino- compared with aminocarbene complexes.     

A theoretical study of substituent effects on the structure of isolated and condensed three-membered rings. A comparison between radicals and parent hydrocarbons

Substituent effects on the structure of radicals and parent hydrocarbons formed by isolated or condensed three-membered rings have been investigated by Hartree-Fock, post-Hartree-Fock and density functional methods. The trends of structural parameters computed for the hydrocarbon systems are in agreement with available experimental data. Substituent effects can be rationalized in terms of interactions between localized orbitals obtained by natural bond analysis. The effects are even larger in free radicals and can be analyzed using the same model. Received: 13 March 1998 / Accepted: 13 July 1998 / Published online: 9 October 1998     

Theoretical Study of the Substituent Effects on the Nonlinear Optical Properties of a Room‐Temperature‐Stable Organic Electride

Excess‐electron compounds can be considered as novel candidates for nonlinear optical (NLO) materials because of their large static first hyperpolarizabilities (β₀). A room‐temperature‐stable, excess‐electron compound, that is, the organic electride Na@(TriPip222), was successfully synthesized by the Dye group (J. Am. Chem. Soc. 2005 , 127, 12416). In this work, the β₀ of this electride was first evaluated to be 1.13×10⁶ au, which revealed its potential as a high‐performance NLO material. In particular, the substituent effects of different substituents on the structure, electride character, and NLO response of this electride were systemically studied for the first time by density functional theory calculations. The results revealed that the β₀ of Na@(TriPip222) could be further increased to 8.30×10⁶ au by introducing a fluoro substituent, whereas its NLO response completely disappeared if one nitryl group was introduced because the nitro‐group substitution deprived the material of its electride identity. Moreover, herein the dependence of the NLO properties on the number of substituents and their relative positions was also detected in multifluoro‐substituted Na@(TriPip222) compounds.     

First-Principles Investigation of the Electronic and Conducting Properties of Oligothienoacenes and their Derivatives

Herein, we calculated reorganization energies, vertical ionization energies, electron affinities, and HOMO–LUMO gaps of fused thiophenes and their derivatives, and analyzed the influence of different substituents on their electronic properties. Furthermore, we simulated the angular resolution anisotropic mobility for both electron- and hole-transport, based on quantum-chemical calculations combined with the Marcus–Hush electron-transfer theory. We showed that: 1) styrene-group substitution can effectively elevate the HOMO energy level and lower the LUMO energy level, and therefore lower both the hole- and electron-injection barriers; and 2) chemical oxidation of the thiophene ring can significantly improve the semiconductor properties of the fused oligothiophenes through a decrease of the injection barrier and an increase in the charge-transfer mobility for electrons but without lowering their hole-transfer mobilities, which suggests that it may be a promising way to convert p-type semiconductors into ambipolar or n-type semiconductor materials.     

Theoretical Study of Remote Substituent Effects on X-H （X=CH2, NH,O） Bond Dissociation Energies of Azulene

In the study, the X-H （X=CH2, NH, O） bond dissociation energies （BDE） of para-substituted azulene （Y-C10H8X-H） were predicted theoretically for the first time using Density Functronal Theory （DFT） methods at UB3LYP/6-311 ＋ ＋g（2df,2p）//UB3LYP/6-31 ＋g（d） level. It was found that the substituents exerted similar effects on the X-H BDE of azulene as those on benzene, except for 6-substituted 2-methylazulene. Owing to the substituent-dipole interaction, the reaction constants （ρ^＋） of 2- and 6-Y-CIoHsX-H （X=NH and O only） varied violently. The origin of the substituent effects on the X-H BDE of azulene was found, by both GE/RE and SIE theory, to be directly associated with variation of the radical effects, although the ground effects also played a modest role in determining the net. substituent effects.     

Thermal Cyclization of Phenylallenes That Contain ortho‐1,3‐Dioxolan‐2‐yl Groups: New Cascade Reactions Initiated by 1,5‐Hydride Shifts of Acetalic H Atoms

A series of 2‐(1,3‐dioxolan‐2‐yl)phenylallenes that contained a range of substituents (alkyl, aryl, phosphinyl, alkoxycarbonyl, sulfonyl) at the cumulenic C3 position were prepared by using a diverse range of synthetic strategies and converted into their respective 1‐(2‐hydroxy)‐ethoxy‐2‐substituted naphthalenes by smooth thermal activation in toluene solution. Electron‐withdrawing groups at the C3 position accelerated these tandem processes, which consisted of 1) an initial hydride‐like [1,5]‐H shift of the acetalic H atom onto the central cumulene carbon atom; 2) a subsequent 6π‐electrocyclic ring‐closure of the resulting reactive ortho‐xylylenes; and 3) a final aromatization step with concomitant ring‐opening of the 1,3‐dioxolane fragment. If the 1,3‐dioxolane ring of the starting allenes was replaced by a dimethoxymethyl group, the reactions led to mixtures of two disubstituted naphthalenes, which were formed by the migration of either the acetalic H atom or the methoxy group, with the latter migration occurring to a lesser extent. Two of the final 1,2‐disubstituted naphthalenes were converted into their corresponding naphtho‐fused dioxaphosphepine or dioxepinone through an intramolecular transesterification reaction. A DFT computational study accounted for the beneficial influence of the 1,3‐dioxolane fragment on the carbon atom from which the H‐shift took place and also of the electron‐withdrawing substituents on the allene terminus. Remarkably, in the processes that contained a sulfonyl substituent, the conrotatory 6π‐electrocyclization step was of lower activation energy than the alternative disrotatory mode.     

Kinetic Stabilization and Reactivity of π Single‐Bonded Species: Effect of the Alkoxy Group on the Lifetime of Singlet 2,2‐Dialkoxy‐1,3‐diphenyloctahydropentalene‐1,3‐diyls

Kinetic stabilization and reactivity of π single‐bonded species have been investigated in detail by generating a series of singlet 2,2‐dialkoxy‐1,3‐diphenyloctahydropentalene‐1,3‐diyls ( DR s). The lifetime at 293 K in benzene was found to increase when the carbon chain length of the alkoxy groups was increased; 292 ns ( DRb ; OR=OR′=OCH₃) <880 ns ( DRc ; OR=OR′=OC₂H₅) <1899 ns ( DRd ; OR=OR′=OC₃H₇) ≈2292 ns ( DRe ; OR=OR′=OC₆H₁₃) ≈2146 ns ( DRf ; OR=OR′=OC₁₀H₂₁). DRh (OR=OC₃H₇, OR′=OCH₃; 935 ns) with the mixed‐acetal moiety is a longer‐lived species than another diastereomer DRg (OR=OCH₃, OR′=OC₃H₇; 516 ns). Activation parameters determined for the first‐order decay process reveal that the enthalpy factor plays a crucial role in determining the energy barrier of the ring‐closing reaction, that is, from the π‐bonding to the σ‐bonding compounds. Computational studies using density functional theory provided more insight into the structures of the singlet species with π single‐bonded character and the transition states for the ring‐closing reaction, thereby clarifying the role of the alkoxy group on the lifetime and the stereoselectivity of the ring‐closing reaction.     

Nanoswitches based on DNA base pairs: why adenine-thymine is less suitable than guanine-cytosine.

Substituted Watson–Crick guanine–cytosine (GC) base pairs were recently shown to yield robust three‐state nanoswitches. Here, we address the question: Can such supramolecular switches also be based on Watson–Crick adenine‐thymine (AT) base pairs? We have theoretically analyzed AT pairs in which purine‐C8 and/or pyrimidine‐C6 positions carry a substituent X=NH^?, NH₂, NH₃⁺ (N series), O^?, OH or OH₂⁺ (O series), using the generalized gradient approximation (GGA) of density functional theory at the BP86/TZ2P level. Thus, we explore the trend in geometrical shape and hydrogen bond strengths in AT pairs along a series of stepwise protonations of the substituents. Introducing a charge on the substituents leads to substantial and characteristic changes in the individual hydrogen bond lengths when compared to the neutral AT pair. However, the trends along the series of negative, neutral, and positive substituents are less systematic and less pronounced than for GC. In certain instances, internal proton transfer from thymine to adenine occurs. Our results suggest that AT is a less suitable candidate than GC in the quest for chemically controlled nanoswitches.     

A Density Functional Theory Investigation of the Cobalt‐Mediated η5‐Pentadienyl/Alkyne [5+2] Cycloaddition Reaction: Mechanistic Insight and Substituent Effects

Alkyl‐substituted η⁵‐pentadienyl half‐sandwich complexes of cobalt have been reported to undergo [5+2] cycloaddition reactions with alkynes to provide η²,η³‐cycloheptadienyl complexes under kinetic control. DFT studies have been used to elucidate the mechanism of the cyclization reaction as well as that of the subsequent isomerization to the final η⁵‐cycloheptadienyl product. The initial cyclization is a stepwise process of olefin decoordination/alkyne capture, C? C bond formation, olefin arm capture, and a second C? C bond formation; the initial decoordination/capture step is rate‐limiting. Once the η²,η³‐cycloheptadienyl complex has been formed, isomerization to η⁵‐cycloheptadienyl again involves several steps: olefin decoordination, β‐hydride elimination, reinsertion, and olefin coordination; also here the initial decoordination step is rate limiting. Substituents strongly affect the ease of reaction. Pentadienyl substituents in the 1‐ and 5‐positions assist pentadienyl opening and hence accelerate the reaction, while substituents at the 3‐position have a strongly retarding effect on the same step. Substituents at the alkyne (2‐butyne vs. ethyne) result in much faster isomerization due to easier olefin decoordination. Paths involving triplet states do not appear to be competitive.     

Methyloxy Substituted Heteroleptic Bis(phthalocyaninato) Yttrium Complexes: Density Functional Calculations

The effects of alkyloxy substituents attached to one phthalocyanine ligand of three heteroleptic bis(phthalocyaninato) yttrium complexes Y(Pc)[Pc(α‐OCH₃)₄] ( 1 ), Y(Pc)[Pc(α‐OCH₃)₈] ( 2 ), and Y(Pc)[Pc(β‐OCH₃)₈] ( 3 ), as well as their reduction products {Y(Pc)[Pc(α‐OCH₃)₄]}^? ( 4 ), {Y(Pc)[Pc(α‐OCH₃)₈]}^? ( 5 ), and {Y(Pc)[Pc(β‐OCH₃)₈]}^? ( 6 ) [H₂Pc(α‐OCH₃)₄=1,8,15,22‐tetrakis(methyloxy)phthalocyanine; H₂Pc(α‐OCH₃)₈=1,4,8,11,15,18,22,25‐octakis(methyloxy)phthalocyanine; H₂Pc(β‐OCH₃)₈=2,3,9,10,16,17,23,24‐octakis(methyloxy)phthalocyanine] are studied by DFT calculations. Good consistency is found between the calculated results and experimental data for the electronic absorption, IR, and Raman spectra of 1 and 3 . Introduction of electron‐donating methyloxy groups on one phthalocyanine ring of the heteroleptic double‐deckers induces structural deformation in both phthalocyanine ligands, electron transfer between the two phthalocyanine rings, changes in orbital energy and composition, shift of electronic absorption bands, and different vibrational modes of the unsubstituted and substituted phthalocyanine ligands in the IR and Raman spectra in comparison with the unsubstituted homoleptic counterpart Y(Pc)₂. The calculations reveal that incorporation of methyloxy substituents at the nonperipheral positions has greater influence on the structure and spectroscopic properties of bis(phthalocyaninato) yttrium double‐deckers than at the peripheral positions, which increases with increasing number of substituents. Nevertheless, the substituent effect of alkyloxy substituents at one phthalocyanine ligand of the double‐decker on the unsubstituted phthalocyanine ring and on the whole molecule and the importance of the position and number of alkyloxy substituents are discussed. In addition, the effect of reducing 1 – 3 to 4 – 6 on the structure and spectroscopic properties of the bis(phthalocyaninato) yttrium compounds is also discussed. This systemic DFT study is not only useful for understanding the structure and spectroscopic properties of bis(phthalocyaninato) rare earth metal complexes but also helpful in designing and preparing double‐deckers with tunable structure and properties.     

Controlling Emissive Properties by Intramolecular Hydrogen Bonds: Alkyl and Aryl meso-Substituted Porphycenes

Porphycene, a porphyrin isomer, is an efficient fluorophore. However, four-fold meso substitution with alkyl groups decreases the fluorescence quantum yield by orders of magnitude. For aryl substituents, this effect is small. To explain this difference, we have synthesized and studied a mixed aryl-alkyl-substituted compound, 9,20-diphenyl-10,19-dimethylporphycene, as well as the 9,20-diphenyl and 9,20-dimethyl derivatives. Analysis of the structural, spectroscopic, and photophysical data of the six porphycenes, combined with quantum chemical calculations, shows a clear correlation between the strength of the intramolecular NH⋅⋅⋅N hydrogen bonds and the efficiency of the radiationless depopulation of the lowest-excited singlet state. This result led us to propose a model in which the delocalization of the inner protons in the cavity of the macrocycle is responsible for the nonradiative deactivation channel. The applicability of the model is confirmed by the literature data for other alkyl- or aryl-substituted porphycenes. The finding of a correlation between structural and emissive characteristics enables a rational design of porphycenes with desired photophysical properties.     

A DFT Study of the Modulation of the Antiaromatic and Open-Shell Character of Dibenzo[a,f]pentalene by Employing Three Strategies: Additional Benzoannulation,BN/CC Isosterism,and Substitution

Dibenzo[a,f]pentalene ( [a , f ]DBP ) is a highly antiaromatic molecule having appreciable open-shell singlet character in its ground state. In this work, DFT calculations at the B3LYP/6-311+G(d,p) level of theory were performed to explore the efficiency of three strategies, that is, BN/CC isosterism, substitution, and (di)benzoannulation of [a , f ]DBP , in controlling its electronic state and (anti)aromaticity. To evaluate the type and extent of the latter, the harmonic oscillator model of aromaticity (HOMA) and aromatic fluctuation (FLU) indices were used, along with the nucleus-independent chemical shift NICS-XY-scan procedure. The results suggest that all three strategies could be employed to produce either the closed-shell system or open-shell species, which may be in the singlet or triplet ground state. Triplet states have been characterized as aromatic, which is in accordance with Baird's rule. All the singlet states were found to have weaker global paratropicity than [a , f ]DBP . Additional (di)benzo fusion adds local aromatic subunit(s) and mainly retains the topology of the paratropic ring currents of the basic molecule. The substitution of two carbon atoms by the isoelectronic BN pair, or the introduction of substituents, results either in the same type and very similar topology of ring currents as in the parent compound, or leads to (anti)aromatic and nonaromatic subunits. The triplet states of all the examined compounds are also discussed.     

Improving the Alkaline Stability of Imidazolium Cations by Substitution

Imidazolium cations are promising candidates for preparing anion‐exchange membranes because of their good alkaline stability. Substitution of imidazolium cations is an efficient way to improve their alkaline stability. By combining density functional theory calculations with experimental results, it is found that the LUMO energy correlates with the alkaline stability of imidazolium cations. The results indicate that alkyl groups are the most suitable substituents for the N3 position of imidazolium cations, and the LUMO energies of alkyl‐substituted imidazolium cations depend on the electron‐donating effect and the hyperconjugation effect. Comparing 1,2‐dimethylimidazolium cations (1,2‐DMIm⁺) and 1,3‐dimethylimidazolium cations (1,3‐DMIm⁺) with the same substituents reveals that the hyperconjugation effect is more significant in influencing the LUMO energy of 1,3‐DMIms. This investigation reveals that LUMO energy is a helpful aid in predicting the alkaline stability of imidazolium cations.     

Structures and electronic absorption spectra of a recently synthesised class of photodynamic therapy agents

A theoretical study was performed on a novel class of boron-containing molecules (various substituted tetraarylazadipyrromethenes), which show in vitro activity for application in photodynamic therapy. Geometric optimisation of the structures for the singlet and triplet electronic states was carried out on compounds in vacuo at the density functional level of theory, by employing the PBE0 hybrid functional and the split-valence plus polarisation basis set. The absorbance properties in the UV-visible region were examined by means of time-dependent density functional response theory, using the same functional as mentioned above. To evaluate the influence of the solvent on the excitation energies, the continuum polarisable model was applied. Calculated electronic excitations, such as those regarding the Q-like band, were found to be in good agreement (within 0.01-0.1 eV) with experimental values and experimental trends on changing both the substituents and solvent.     

The gas phase acidity of oligofluorobenzenes and oligochlorobenzenes: about the additivity or non-additivity of substituent effects

The deprotonation energies of benzene, fluorobenzene, all di-, tri-, and tetrafluorobenzenes, pentafluorobenzene, chlorobenzene, all di-, tri-, and tetrachlorobenzenes, and pentachlorobenzene have been calculated at various levels of second-order Moller-Plesset and density functional theory. Taking the previously determined experimental data as a benchmark, good agreement was achieved in the chloro series even with moderate computational effort, whereas more extended basis sets have to be used to obtain meaningful numbers in the fluoro series. Apparently, most extensive electron correlation is required to avoid artifacts caused by the proximity of nonbonding lone pairs at the carbanionic center and at the fluorine atoms. When two or more fluorine substituents were introduced in the same aromatic ring, their individual effects (as defined by position-dependent acidity increments) proved to be perfectly additive in the entire series. In contrast, the acidifying effect of chloro substituents was found to level off when the number of such halogens increases. Additivity or non-additivity of element effects cannot be ascertained after having merely compared the acidity of mono- and disubstituted substrates, but only after having moved to higher degrees of substitution.     

Substituent Effect on the π Linkers in Triphenylamine Dyes for Sensitized Solar Cells: A DFT/TDDFT Study

A series of metal‐free organic donor–π bridge–acceptor dyes are studied computationally using density functional theory (DFT) and time‐dependent DFT (TDDFT) approaches to explore their potential performances in dye‐sensitized solar cells (DSSCs). Taking triphenylamine (TPA) and cyanoacrylic acid moieties as donor and acceptor units, respectively, the effects of different substituents of the π linkers in the TPA‐based dyes on the energy conversion efficiency of the DSSCs are theoretically evaluated through optimized geometries, charge distributions, electronic structures, simulated absorption spectra, and free energies of injection. The results show that the molecular orbital energy levels and electron‐injection driving forces of the TPA dyes can be tuned by the introduction of substituents with different electron‐withdrawing or ‐donating abilities. The electron‐withdrawing substituent always lowers the energies of both frontier orbitals, while the electron‐donating one heightens them simultaneously. The efficiency trend of these TPA derivatives as sensitizers in DSSCs is also predicted by analyzing the light‐harvesting efficiencies and the free energies of injection. The following substituents are shown to increase the efficiency of the dye: OMe, OEt, OHe, and OH.