Accurate simulation of optical properties in dyes

Computational screening of phytochemicals present in some Nigerian medicinal plants against sickle cell disease

Four hundred Phytochemical (bio-active) compounds having predictive activity for treating Sickle Cell Anemia were screened, using PASS online computational resource. Twenty-six compounds out of the four hundred compounds which showed high probability for treating sickle were further screened for pharmacokinetics profiles (ADMET properties) using SwissAdmet, AdmetSAR 2 and Pro-tox II online resources. Only thirteen compounds that displayed good ADMET properties from the twenty-six were further used for DFT calculations and molecular docking against carbonmonoxy sickle hemoglobin (PDB ID: 5E6E). Molecular docking analysis reinforced by DFT calculations showed that two compounds, phenanthrene-5,6-dione (A9) and 2-(3,4-dihydroxyphenyl)-5,7-dihydroxychromen-4-one (A13, Luteolin) had the best binding affinity of  - 8.3 and - 8.9 kcal/mol, respectively, compared to voxelotor (GBT-440), a drug use in treating sickle cell disease. Molecular dynamic simulations showed that 2-(3,4-dihydroxyphenyl)-5,7-dihydroxychromen-4-one (A13, Luteolin) is highly stable with the protein than voxelotor.

Enantiomeric separation of flavanone on Chiralpak® IA column and determination of the chiral mechanism

Thirteen flavanone racemates were successfully separated using a Chiralpak® IA column and isopropanol-hexane (50:50, v/v). The mobile phase flow rate and detection wavelength were 0.5 mL/min and 254 nm. The retention times values ranged from 5.50 and 56.45 min. The values of the retention, separation, and resolution factors ranged from 0.63 to 21.67, 1.12 to 2.45, and 0.13 to 11.94. The docking binding energies ranged from -6.2 to -8.2 kcal/mol, showing enthalpy-determined host-guest complex formation. The molecular docking results and the experimental data were agreed well. The results showed that S-enantiomers had stronger bindings with chiral selectors compared to R-enantiomers. Consequently, the R-enantiomers eluted first followed by S-enantiomers. The reported method is highly useful to determine the enantiomeric composition of the reported flavanone in any sample.

Structure and Chiroptical Properties of Anthra[1,2-a]anthracene-1-yl Dimers as New Biaryls

Dimers of anthra[1,2-a]anthracene-1-yl units and its mesityl derivative were synthesized by Ni(0)-mediated coupling of the corresponding chloro derivatives as new biaryls. The X-ray analysis and DFT calculations revealed that two polycyclic aromatic units with nonplanar deformations took a twisted conformation about the single bond as a chiral axis. Enantiomers of the nonsubstituted compound were resolved by chiral HPLC, and the enantiopure samples showed intense Cotton effects at 321 nm in the circular dichroism (CD) spectra and emission bands at 449 nm in the circularly polarized luminescence (CPL) spectra with dissymmetry factor of |glum| 3.6×10-3. The absolute stereochemistry of this biaryl was determined by the theoretical calculation of CD spectrum by the time-dependent DFT method. The barrier to enantiomerization was determined to be 108 kJ mol-1 at 298 K. The dynamic process proceeded via a stepwise mechanism involving the helical inversion of each aromatic unit and the rotation about the biaryl axis as analyzed by the DFT calculations.

Designed complexes combining brazilein and brazilin with betanidin for dye-sensitized solar cell application: DFT and TD-DFT study

Dye-sensitized solar cells (DSSCs) are promising third-generation photovoltaic cell technology owing to their easy fabrication, flexibility and better performance under diffuse light conditions. Natural pigment sensitizers are abundantly available and environmentally friendliness. However, narrow absorption spectra of natural pigments result in low efficiencies of the DSSCs. Therefore, combining two or more pigments with complementary absorption spectra is considered an appropriate method to broaden the absorption band and boost efficiency. This study reports three complex molecules: brazilin-betanidin-oxane (Braz-Bd-oxane), brazilin-betanidin-ether (Braz-Bd-ether) and brazilein-betanidin-ether (Braze-Bd-ether), obtained from the etherification and bi-etherification reactions of brazilin dye and brazilein dye with betanidin dye. The equilibrium geometrical structure properties, frontier molecular orbital, electrostatic surface potential, reorganization energy, chemical reactivities, and non-linear optical properties of the studied dyes were investigated using density functional theory (DFT)/B3LYP methods, with 6-31+G(d,p) basis sets and LANL2DZ for light atom and heavy atoms respectively. The optical-electronic properties were calculated using TD-DFT/B3LYP/6-31+G(d,p) for isolated dye and TD-DFT/CAM-B3LYP/6-31G(d,p)/LANL2DZ for dyes@(TiO2)9H4. The results reveal that spectra for Braz-Bd-oxane and Braze-Bd-ether complexes red-shifted compared to the individually selected dyes. The simulated absorption spectra of the adsorbed dyes on (TiO2)9H4 are red-shifted compared to the free dye. Moreover, Braz-Bd-oxane and Braz-Bd-ether exhibit better charge transfer and photovoltaic properties than the selected natural dyes forming these complexes. Based on the dyes' optoelectronic properties and photovoltaic properties, the designed molecules Braz-Bd-oxane and Braze-Bd-ether are considered better candidates to be used as photosensitizers in dye solar cells.

Molecular engineering on D-π-A organic dyes with flavone-based different acceptors for highly efficient dye-sensitized solar cells using experimental and computational study

CONTEXT

The improvement of new organic flavone-based donor-spacer-acceptor (D-π-A) type dye molecules of the 3-(4-hydroxypiperidin-2-yloxy)-7-hydroxy-2-(3,4-dihydroxyphenyl)-4H-chromen-4-one (D1), 7-hydroxy-2-(3,4-dihydroxyphenyl)-3-(piperidin-4-yloxy)-4H-chromen-4-one (D2), and 3-((2-aminopyridin-4-yloxy)methoxy)-7-hydroxy-2-(3,4-dihydroxyphenyl)-4H-chromen-4-one (D3) were successfully designed and synthesized for dye-sensitized solar cells (DSSCs).

METHODS

Here, we discuss the synthesis of flavone compounds as well as their photophysical and electrochemical characterization. Using the Gaussian 09w software, the electronic structures and apsorption spectra have been calculated at the B3LYP, B3PW91, CAM-B3LYP, MPW1PW91, PBEPBE, and ωB97XD theory with the 6-311G(d,p) basis sets.

RESULTS

The computed values of the D2 molecule ground state optimized HOMOs-LUMOs energy is well positioned for advantageous charge transfer (CT) into the semiconducting material (TiO₂) as well as the electron injection process. With a high power conversion efficiency (PCE) of 3.46% (V_OC = 0.718 V, J_SC = 7.07 mA cm^-2, and FF = 0.68), the D2 compound also demonstrated good photovoltaic (PV) properties.

CONCLUSION

These findings unequivocally demonstrate that altering the D-π-A metal-free organic material electron-withdrawing capacity is a useful strategy for enhancing the optical and electrical characteristics of the organic PV system.

Chloride Binding Modulated by Anion Receptors Bearing Tetrazine and Urea

Modulation and fine-tuning of the strength of weak interactions to bind anions are described in a series of synthetic receptors. The general design of the receptors includes both a urea motif and a tetrazine motif. The synthetic sequence towards three receptors is detailed. Impacts of H-bond strength and linker length between urea and tetrazine on chloride complexation are studied. Binding properties of the chloride anion are examined in both the ground and excited states using a panel of analytical methods (NMR spectroscopy, mass spectrometry, UV/Visible spectroscopies, and fluorescence). A ranking of the receptors by complexation strength has been determined, allowing a better understanding of the structure-properties relationship on these compounds.

A strategy to enhance VOC of π-conjugated molecules based on thieno[2,3-b] indole for applications in bulk heterojunction organic solar cells using DFT, TD-DFT, and 3D-QSPR modeling studies

The electronic structure and optical properties of eight novel molecules based on 8-alkyl-8H-thieno[2,3-b] indole was determined using density functional theory DFT, TD-DFT and 3D-QSPR.

Characterizing Interfacial Structures of Dye-Sensitized Solar Cell Working Electrodes

In this feature article, we discuss the fundamental use of materials-characterization methods that directly determine structural information on the dye···TiO2 interface in dye-sensitized solar cells (DSCs). This interface is usually buried within the DSC and submerged in solvent and electrolyte, which renders such metrological work nontrivial. We will show how ex-situ X-ray reflectometry (XRR), atomic-force microscopy (AFM), grazing-incidence X-ray scattering (GIXS), pair-distribution-function analysis of X-ray diffraction data (gaPDF), and in-situ neutron reflectometry (NR) can be used to deliver specific structural information on the dye···TiO2 interface regarding dye anchoring, dye aggregation, molecular dye orientation, intermolecular spacing between dye molecules, interactions between the dye molecules and the TiO2 surface, and interactions between the dye molecules and the electrolyte components and precursors. Some of these materials-characterization techniques have been developed specifically for this purpose. We will demonstrate how the direct acquisition of such information from materials-characterization experiments is crucial for assembling a holistic structural picture of this interface, which in turn can be used to develop DSC design guidelines. Moreover, we will show how these methodologies can be used in the experimental-validation process of "design-to-device" pipelines for big-data- and machine-learning-based materials discovery. We conclude with an outlook on further developments of this design-to-device approach as well as the materials characterization of more dye···TiO2 interfacial structures that involve known DSC dyes using the methods described herein. In addition, we propose to combine these formally disparate metrologies so that their complementary merits can be exploited simultaneously. New metrologies of this kind could serve as a "one-stop-shop" for the materials characterization of surfaces, interfaces, and bulk structures in DSCs and other devices with layered architectures.

QSPR modeling of absorption maxima of dyes used in dye sensitized solar cells (DSSCs)

Dye-sensitized solar cells (DSSCs) have recently received a significant attention as possible sources of renewable energy. As a result, a significant effort is being made to develop organic dyes for highly power conversion efficient DSSCs, in order to overcome the disadvantages of previous solar cell systems, such as cost reduction, weight reduction, and production methods that minimize environmental pollution. As shown by multiple recent research publications, computational techniques such as quantitative structure-property relationship (QSPR) modeling may aid in the development of suitable dyes for DSSCs satisfying many fundamental desired characteristics. The current report provides robust, externally verified QSPR models for five chemical classes of organic dyes (Triphenylamines, Phenothiazines, Indolines, Porphyrins and Coumarins) based on experimentally determined absorption maxima values. The size of the dye data points utilized to develop the models is the largest known to date. The QSPR models were constructed using only two-dimensional descriptors with clear physicochemical meaning. Using the best subset selection approach, we built 5, 3, 4, 3 and 2 descriptor models for the Triphenylamine, Phenothiazine, Indoline, Porphyrin and Coumarin classes, respectively. The models were validated both internally and externally, and then consensus predictions were made for specific categories of dyes using the developed partial least squares (PLS) models, and the "Intelligent consensus predictor" tool (http://teqip.jdvu.ac.in/QSAR_Tools/) was used to determine whether the quality of test set compound predictions can be improved through the "intelligent" selection of multiple PLS models. We identified from the insights gained from the developed models several chemical attributes that are important in enhancing the absorption maxima. Thus, our study may be utilized to predict the λ_max values of novel or untested organic dyes and to give insights that will aid in the development of new dyes for use in solar cells with increased λ_max values and enhanced power conversion efficiency.

Accurate predictions of the electronic excited states of BODIPY based dye sensitizers using spin-component-scaled double-hybrid functionals: a TD-DFT benchmark study

The vertical excitation energies of 13 BODIPY based dye sensitizers are benchmarked by means of TD-DFT, using 36 functionals from different DFT rungs. Most TD-DFT results were found to overestimate the excitation energies, and show mean absolute error (MAE) values in the range 0.2-0.5 eV. The dispersion-corrected, spin-component-scaled, double-hybrid (DSD) functionals DSD-BLYP and DSD-PBEP86 were found to have the smallest MAE values of 0.083 eV and 0.106 eV, respectively, which is close to the range of average errors found in the more expensive coupled-cluster methods. Moreover, DSD-BLYP and DSD-PBEP86 functionals show excellent consistency and quality of results (standard deviation = 0.048 eV and 0.069 eV respectively). However, the range separated hybrid (RSH) and the range separated double hybrid (RSDH) functionals were found to provide the best predictability (linear determination coefficient R 2 > 0.97 eV).

Assessment of time-dependent density functionals for the electronic excitation energies of organic dyes used in DSSCs

The absorption spectra modeled as the vertical excitation energies of 13 dye sensitizers used in dye-sensitized solar cells (DSSCs) are benchmarked by means of time-dependent (TD)-DFT, using 36 functionals from different DFT rungs.

Optical and Electronic Properties of Organic NIR-II Fluorophores by Time-Dependent Density Functional Theory and Many-Body Perturbation Theory: GW-BSE Approaches

Organic-molecule fluorophores with emission wavelengths in the second near-infrared window (NIR-II, 1000-1700 nm) have attracted substantial attention in the life sciences and in biomedical applications because of their excellent resolution and sensitivity. However, adequate theoretical levels to provide efficient and accurate estimations of the optical and electronic properties of organic NIR-II fluorophores are lacking. The standard approach for these calculations has been time-dependent density functional theory (TDDFT). However, the size and large excitonic energies of these compounds pose challenges with respect to computational cost and time. In this study, we used the GW approximation combined with the Bethe-Salpeter equation (GW-BSE) implemented in many-body perturbation theory approaches based on density functional theory. This method was used to perform calculations of the excited states of two NIR molecular fluorophores (BTC980 and BTC1070), going beyond TDDFT. In this study, the optical absorption spectra and frontier molecular orbitals of these compounds were compared using TDDFT and GW-BSE calculations. The GW-BSE estimates showed excellent agreement with previously reported experimental results.

Electronic and optical properties' tuning of phenoxazine-based D-A2-π-A1 organic dyes for dye-sensitized solar cells. DFT/TDDFT investigations

Modulation of molecular features of metal free organic dyes is important to present sensitizers with competing electronic and optical properties for dye sensitized solar cells (DSSCs). The D-A₂-π-A₁ molecular design based on phenothiazine skeleton (D) connected with benzothiadiazole (A₂) linked with furan π-spacer and acceptor unit of cynoacrylic acid (A₁) were fabricated and examined theoretically for possible use as DSSCs. Density functional theory (DFT) and time dependent density functional theory TDDFT were used to study the effect of additional donors on the photophysical properties of the dyes. Eight (8) different donor subunits were introduced at C7 of phenoxazine based dye skeleton to extend the π-conjugation, lower HOMO-LUMO gap (E_g) and improve photo-current efficiency of the dye sensitizer. All the dye sensitizers (except P3 and P4) exhibited capability of injecting electrons into the conduction band of the semiconductor (TiO₂) and regenerated via redox potential (I⁻/I₃^-) electrode. Attachment of 2-hexylthiophene (P2) remarkably lowered the E_g, extended π-electron delocalization, hence, gives higher absorption wavelength (λ_max) at 752 nm. The donor subunit containing 2-hexylthiophene (P2) presented the best chemical hardness, open circuit voltage (V_oc), and other comparable electronic properties, making P2 the best DSSC candidate amongst the optimized dyes. The reported dyes would be interesting for further experimental research.

Hydroxyaromatic Fluorophores

Many fluorophores that are widely used in analytical biochemistry and in biological microscopy contain a hydroxyaromatic component. One could also find fascinating chemistries of hydroxyaromatic dyes, especially those capable of excited state proton transfer (ESPT) to produce dual emission, in the literature of materials and physical chemistry. The ESPT-capable compounds have attracted interest based on their fundamental intellectual values in molecular photophysics and their potential utilities as light emitters in organic light-emitting diodes (LEDs) or fluorescent sensors. The hydroxyaromatic dyes could undergo either intra- or intermolecular proton transfer in either electronic ground or excited states. Although having long been applied for various purposes, some of their absorption and emission properties have not always been clearly described because of the insufficient attention given to proton transfer equilibria in either the ground or excited state and the challenges in computationally modeling the true emitters of these dyes under any given conditions. In this article, an attempt is made to summarize the spectroscopic properties of a few common hydroxyaromatic dyes that have been studied for both fundamental and practical purposes, with the help from quantum chemical calculations of the absorption and emission energies of these dyes in neutral and anion forms. The goal of this article is to provide readers some clarity in the optical properties of these compounds and the tools to understand and to predict the photon-initiated behaviors of hydroxyaromatic fluorophores.

A new cross-conjugated mesomeric betaine

Cross-conjugated mesomeric betaine (CCMB) has been defined as the dipolar species in which positive and negative charges are exclusively restricted to different parts of the molecule. In contrast to indolizine which undergoes [8+2] cycloaddition with dimethyl acetylenedicarboxylate (DMAD), its 1-aza analogue, namely imidazo[1,2-a]pyridine reacts with the same reagent to afford the first representative of the CCMB isoconjugate with the odd non-alternant hydrocarbon anion. The structure of the product could be assigned on the basis of the NMR and HRMS results. Furthermore, the spectral studies indicated the presence of additional DMAD molecules in CCMB, possibly in the form of a charge-transfer (CT) complex. The whole sequence of reactions initiated by the attack of imidazo[1,2-a]pyridine on DMAD could be rationalized on the basis of the computational study of a model reaction sequence at the DFT (B3LYP/6-31+G(d)) level indicating the formation of a new CCMB derivative. The electronic excited states of the product were investigated by time-dependent density functional theory (TDDFT) calculations at the wB97XD/6-311++G(d,p) level, which indicate low-lying charge transfer that is characteristic of the CCMBs.

Cross-conjugated mesomeric betaine (CCMB) has been defined as the dipolar species in which positive and negative charges are exclusively restricted to different parts of the molecule. A new CCMB isoconjugate with odd non-alternant hydrocarbon anion is reported.

Michler's hydrol blue elucidates structural differences in prion strains

Yeast prions provide self-templating protein-based mechanisms of inheritance whose conformational changes lead to the acquisition of diverse new phenotypes. The best studied of these is the prion domain (NM) of Sup35, which forms an amyloid that can adopt several distinct conformations (strains) that confer distinct phenotypes when introduced into cells that do not carry the prion. Classic dyes, such as thioflavin T and Congo red, exhibit large increases in fluorescence when bound to amyloids, but these dyes are not sensitive to local structural differences that distinguish amyloid strains. Here we describe the use of Michler's hydrol blue (MHB) to investigate fibrils formed by the weak and strong prion fibrils of Sup35NM and find that MHB differentiates between these two polymorphs. Quantum mechanical time-dependent density functional theory (TDDFT) calculations indicate that the fluorescence properties of amyloid-bound MHB can be correlated to the change of binding site polarity and that a tyrosine to phenylalanine substitution at a binding site could be detected. Through the use of site-specific mutants, we demonstrate that MHB is a site-specific environmentally sensitive probe that can provide structural details about amyloid fibrils and their polymorphs.

Triangulenium dyes: the comprehensive photo-absorption and emission story of a versatile family of chromophores

The triangulenium dyes constitute a family of versatile chromophores whose impressive photo-absorption and emission properties are currently highlighted in numerous novel experimental applications. In this investigation, we provide a comprehensive TDDFT characterization of their spectroscopic properties elucidating the origin of their large and complex absorption and emission vibronic spectra spread over the (whole) visible region. More precisely, by benchmarking the performance of 10 commonly-used exchange-correlation density functionals belonging to different classes of approximation, we develop and validate a computational protocol allowing the accurate modeling of both the position and optical line-shape of their vibrationally-resolved absorption and emission band structures. We find that semilocal approximations provide the best estimate of the structure of the vibronic spectra, however they spuriously and strongly underestimate their position. We finally show that global-hybrid density functionals mixing between 20 and 30% of exact-like exchange are an excellent compromise to get a satisfactory estimate of both of these properties.

Theoretical calculations of molecular descriptors for anticancer activities of 1, 2, 3-triazole-pyrimidine derivatives against gastric cancer cell line (MGC-803): DFT, QSAR and docking approaches

This work used quantum chemical method via DFT to calculate molecular descriptors for the development of QSAR model to predict bioactivity (IC50- 50% inhibition concentration) of the selected 1, 2, 3-triazole-pyrimidine derivatives against receptor (human gastric cancer cell line, MGC-803). The selected molecular parameters were obtained by B3LYP/6-31G∗∗. QSAR model linked the molecular parameters of the studied compounds to their cytotoxicity and reproduced their observed bioactivities against MGC-803. The calculated IC50 tailored the observed IC50 and greater than standard compound, 5-fluorouracil, suggesting that the developed QSAR model reproduced the observed bioactivity. Statistical analyses (including R2, CV. R2 andR a 2 gave 0.950, 0.970 and 0.844 respectively) revealed a very good fitness. Molecular docking studies revealed the hydrogen bonding with the amino acid residues in the binding site, as well as ligand conformations which are essential feature for ligand-receptor interactions. Therefore, the methods used in this study are veritable tools that can be employed in pharmacological and medicinal chemistry researches in designing better drugs with improve potency.

Theoretical investigation using DFT of quinoxaline derivatives for electronic and photovoltaic effects

Photovoltaic properties of solar cells based on fifteen organic dyes have been studied in this work. B3LYP/6-311G (d,p) methods are realized to obtain geometries and optimize the electronic properties, optical and photovoltaic parameters for some quinoxaline derivatives. The results showed that time dependent DFT investigations using the CAM-B3LYP method with the polarized split-valence 6-311G (d,p) basis sets and the polarizable continuum model PCM model were sensibly able to predict the excitation energies, the spectroscopy of the compounds. HOMO and LUMO energy levels of these molecules can make a positive impact on the process of electron injection and dye regeneration. Gaps energy ΔE_g, short-circuit current density J_sc, light-harvesting efficiency LHE, injection driving force ΔG^inject, total reorganization energy λ_total and open-circuit photovoltage V_oc enable qualitative predictions about the reactivity of these dyes.

The hydrogen transfer reaction between the substance of triplet state thioxanthone and alkane with sp3 hybridization hydrogen

The activation or functionalization of the saturated C-H is an extremely active field at present. We have explored the triplet state thioxanthone in reactivity of the hydrogen transfer reaction between donors and acceptors. In our works, two donors with quasi-inert sp³ C-H of skipped diene (3,6-nonadiene) and cyclic acetals (benzodioxole) reacted with type II photoinitiators (triplet state of thioxanthone series, TXs) as acceptors are investigated. The excited energies of TXs were obtained by time-dependent density functional theory (TD-DFT). TXs show obvious photosensibility based on their low reorganization energies (< 60 kcal mol^-1). The isoentropy reactions had linear geometries of transition state (TS). The distortion/interaction model was used to probe the existence of interaction between acceptors and donors in saddle point. The distortion energy and activation barrier of benzodioxole are much higher than those of the corresponding 3,6-nonadiene. The lower bond dissociation energy noticeably affect the transition state. The reaction of triplet state of TXs with skipped dienes were found to have an anomalous low tunneling factors by using Wigner correction and early transition state by using the bond-energy-bond-order method. The triplet state of TXs photoinitiator can induced the hydrogen abstraction from saturated cyclic acetals and the skipped alkadienes. The hydrogen abstraction experiment are confirmed by UV and real-time FTIR.

Red Emitting Hydroxybenzazole (HBX) Based Azo Dyes: Linear and Non Linear Optical Properties, Optical Limiting, Z Scan Analysis with DFT Assessments

Herein, we report the hydroxybenzazole (HBX) containing azo dyes for "linear and non-linear optical" (NLO) applications. These bi-heterocyclic dyes have HBX scaffold (decorated with ESIPT core) and connected to another thiazole moietiy through azo bond. In DMF and DMSO, dyes are "emissive in yellow-red region" and "large Stokes shift" in the range of 62-121 nm were observed. "Nonlinear absorptive coefficient" (β), "nonlinear refractive index" (ƞ₂), "third order non-linear optical susceptibility" (χ³) in DMSO, ethanol and methanol were calculated using simple and effective "Z-scan technique" having "Nd: YAG laser" at 532 nm wavelength. 4.46 × 10^-13 (e.s.u.) was the highest (χ³) was observed in DMSO among all the dyes. Optical Limiting (OL) values are in the range of 7.61-19.06 J cm^-2 in solvents. Thermo Gravimetric Analysis (TGA) supports that, these compounds are useful for numerous high-temperature practices in the construction of electronic as well as optical devices. Band gap was calculated by CV as well as by DFT in acetonitrile. The same trend was observed when these HOMO-LUMO gaps were correlated in between CV and DFT. To gain more insights into structural parameters, molecular geometries were optimized at "B3LYP-6-311 + G (d,p)" level of theory. Further, "Molecular Electrostatic Potential" (MEP), "Frontier Molecular Orbitals" (FMO) were presented using "Density Functional Theory (DFT)". Global hybrid functional (B3LYP, BHandHLYP) and range separated hybrid functionals (RSH) i.e. CAM-B3LYP, ωB97, ωB97X, and ωB97XD were used to calculate linear and NLO properties. Graphical Abstract.

Quantitative Design of Bright Fluorophores and AIEgens by the Accurate Prediction of Twisted Intramolecular Charge Transfer (TICT)

Inhibition of TICT can significantly increase the brightness of fluorescent materials. Accurate prediction of TICT is thus critical for the quantitative design of high-performance fluorophores and AIEgens. TICT of 14 types of popular organic fluorophores were modeled with time-dependent density functional theory (TD-DFT). A reliable and generalizable computational approach for modeling TICT formations was established. To demonstrate the prediction power of our approach, we quantitatively designed a boron dipyrromethene (BODIPY)-based AIEgen which exhibits (almost) barrierless TICT rotations in monomers. Subsequent experiments validated our molecular design and showed that the aggregation of this compound turns on bright emissions with ca. 27-fold fluorescence enhancement, as TICT formation is inhibited in molecular aggregates.

Theoretical and experimental investigation on the intersystem crossing kinetics in benzothioxanthene imide luminophores, and their dependence on substituent effects

Substituent induced distortion effects play a crucial role in enhancing the intersystem crossing kinetics in benzothioxanthene imide derivatives.

Quantitative prediction of electronic absorption spectra of copper(II)-bioligand systems: Validation and applications

The visible region of the electronic absorption spectra of Cu(II) complexes was studied by time-dependent density functional theory (TD-DFT). The performance of twelve functionals in the prediction of absorption maxima (λ_max) was tested on eleven compounds with different geometry, donors and charge. The ranking of the functionals for λ_max was determined in terms of mean absolute percent deviation (MAPD) and standard deviation (SD) and it is as follows: BHandHLYP > M06 ≫ CAM-B3LYP ≫ MPW1PW91 ~ B1LYP ~ BLYP > HSE06 ~ B3LYP > B3P86 ~ ω-B97x-D ≫ TPSSh ≫ M06-2X (MAPD) and BHandHLYP > M06 ~ HSE06 > ω-B97x-D ~ CAM-B3LYP ~ MPW1PW91 > B1LYP ~ B3LYP > B3P86 > BLYP ≫ TPSSh ≫ M06-2X (SD). With BHandHLYP functional the MAPD is 3.1% and SD is 2.3%, while with M06 the MAPD is 3.7% and SD is 3.7%. The protocol validated in the first step of the study was applied to: i) calculate the number of transitions in the spectra and relate them to the geometry of Cu(II) species; ii) determine the coordination of axial water(s); iii) predict the electronic spectra of the systems where Cu(II) is bound to human serum albumin (HSA) and to the regions 94-97 and 108-112 of prion protein (PrP). The results indicate that the proposed computational protocol allows a successful prediction of the electronic spectra of Cu(II) species and to relate an experimental spectrum to a specific structure.

Molecular modeling as a design tool for sunscreen candidates: a case study of bemotrizinol

Sunscreen-based photoprotection is an important strategy to prevent photoaging and skin cancer. Among the effective and modern sunscreens, triazine compounds are known as an important class based on their physical-chemical properties, such as photostability and UV broad-spectrum absorption (UVA and UVB). Molecular modeling and quantum mechanical calculations approaches can be helpful to orientate the design of sunscreens. Herein, a case study is presented to demonstrate the importance of the molecular modeling as a design tool for promising sunscreen candidates based on the synthesis research previously described of bemotrizinol, a broad-spectrum photostable organic UV filter present in many sunscreens products. Time-dependent density functional theory (TD-DFT) calculations performed in gas phase on the isolated organic UV filters proved to reproduce the experimental UV absorption, guiding the choice of the most efficient candidate as sunscreen. The present work highlights the importance of molecular modeling as an effective tool to support synthesis research, increasing the possibility of obtaining promising compounds with reduced costs and effluent production. Graphical abstractA case study to demonstrate the importance of the molecular modeling as a design tool for promising sunscreen candidates is presented. The method proved to be a valuable tool to reproduce the experimental UV absorption and to determinate the most efficient molecule as sunscreen among the candidates.

Electronic spectroscopic characterization of the formation of iron(III) metal complexes: The 8-HydroxyQuinoline as ligand case study

Synthetic siderophores derivated from 8-HydroxyQuinoline (HQ) present various biological and pharmacological activities, such as anti-neurodegenerative or anti-oxydative. However, their affinity towards iron(III) seems to depend on the position (i.e., 7 or 2) of the HQ substitution by an electron withdrawing group. Two ester-derivatives of HQ at 2- and 7-position are synthesized and their respective iron-complexation is characterized by a joined experimental and theoretical work. By investigating the stability of all the possible accessible spin states of the iron(III) complexes at density-functional theory (DFT) level, we demonstrate that the high-spin (HS) state is the most stable one, and leads to a UV/vis absorption spectrum in perfect match with experiments. From this DFT protocol, and in agreement with the experimental results, we show that the ester functionalization of HQ in 2-position weakens the formation of the iron(III) complex while its substitution in 7-position allows a salicylate coordination of the metal very close to the ideal octahedral environment.

Characterization of the Scattering and Absorption of Colored Zein Colloids in Optically Dense Dispersions

In this research, we model the color of optically dense colloidal dispersions of dyed and undyed zein particles using results from multiple light scattering theory. These particles, as well as monodisperse silica colloids, were synthesized and characterized to obtain particle properties such as particle size, particle size distribution, refractive index, and absorption spectrum of the dye. This information was used to model the diffuse transmission of concentrated particle dispersions, which was measured using a specially designed variable path length quartz glass cuvette. For the nonabsorbing silica dispersions, a transport mean-free path throughout the visible range was obtained. Results showed a difference of less than 5% from the values calculated with a multiple scattering model using the single-particle properties as an input. For undyed zein particles, which are off-white, the deviation between the model and the experiment was about 30% because of slight absorption at wavelengths below 550 nm but <7% at higher wavelengths. From these results, it was concluded that the model correctly describes diffuse transmission and that the measurements are sensitive to absorption. Finally, this method was applied to dispersions of dyed zein particles. Here, the transport mean-free path was first determined for wavelengths at which there is no absorption, which agreed with the theory better than 4%. The modeled transport mean-free path was then used to extract the reciprocal absorption mean-free path in the remaining parts of the visible spectrum, and a reasonable agreement with the absorption spectrum of the dye solution was obtained.

Electronic structure properties of transition metal dichalcogenide nanotubes: a DFT benchmark

In this work, we conduct a benchmark study of bandgap energies and density of states of some transition metal dichalcogenide nanotubes by means of density functional theory (DFT) methodology within both CASTEP and DMol³ methodologies. We compare different chiralities and sizes as well as different levels of theory in order to provide the literature with extensive data regarding crucial electronic structure properties of MoS₂, MoSe₂, mOtE₂, WS₂, WSe₂, and WTe₂ nanotubes. Although the two methods were able to rescue experimental evidences, we observed DMol³ to perform better in terms of computational cost, whereas CASTEP has shown to provide an overall greater accuracy at the cost of higher expenditures. The data provided in this work is an important suggestion of which direction future works should follow in further description of these technological promising materials. Graphical Abstract Frontal (left) and side (right) views for the schematic represenation of a zigzag TMD nanotube.

Unraveling the molecular mechanisms of color expression in anthocyanins

Anthocyanins are a broad family of natural dyes, increasingly finding application as substitutes for artificial colorants in the food industry. In spite of their importance and ubiquity, the molecular principles responsible for their extreme color variability are poorly known. We address these mechanisms by computer simulations and photoabsorption experiments of cyanidin-3-O-glucoside in water solution, as a proxy for more complex members of the family. Experimental results are presented in the range of pH 1-9, accompanied by a comprehensive systematic computational study across relevant charge states and tautomers. The computed spectra are in excellent agreement with the experiments, providing unprecedented insight into the complex behavior underlying color expression in these molecules. Besides confirming the importance of the molecule's charge state, we also unveil the hitherto unrecognized role of internal distortions in the chromophore, which affect its degree of conjugation, modulating the optical gap and in turn the color. This entanglement of structural and electronic traits is also shared by other members of the anthocyanin family (e.g. pelargonidin and delphinidin) highlighting a common mechanism for color expression across this important family of natural dyes.