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Structure and binding efficiency relations of QB site inhibitors of photosynthetic reaction centres*
摘要： Many herbicides employed in agriculture and also some antibiotics bind to a specific site of the reaction centre protein (RC) blocking the photosynthetic electron transport. Crystal structures showed that all these compounds bind at the secondary ubiquinone (QB) site albeit to slightly different places. Different herbicide molecules have different binding affinities (evaluated as inhibition constants, KI, and binding enthalpy values, ?Hbind). The action of inhibitors depends on the following parameters: (i) herbicide molecular structure; (ii) interactions between herbicide and quinone binding site; (iii) protein environment. In our investigations KI and ?Hbind were determined for several inhibitors. Bound herbicide structures were optimized and their intramolecular charge distributions were calculated. Experimental and calculated data were compared to those available from databank crystal structures. We can state that the herbicide inhibition efficiency depends on steric and electronic factors, i.e. geometry of binding with the protein and molecular charge distribution, respectively. Apolar bulky groups on N-7 atom of the inhibitor molecule (like t-buthyl in terbutryn) are preferable for establishing stronger interactions with QB site, while such substituents are not recommended on N-8. The N-4,7,8 nitrogen atoms maintain a larger electron density so that more effective H-bonds are formed between the inhibitor and the surrounding amino acids of the protein.
关键词： Herbicides,Bacterial reaction centers,Photosynthesis,Molecular modeling
更新于2025-09-23 15:22:29
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Prediction of Second-Order Nonlinear Optical Properties of D–π–A Compounds Containing Novel Fluorene Derivatives: A Promising Route to Giant Hyperpolarizabilities
摘要： Herein, ?rst attempt has been made to utilize ?uorene-based dye-sensitized solar cell (DSSCs) dye JK-201 as potential nonlinear optical (NLO) material and for the theoretical designing of novel NLO chromophores JK-D1–JK-D12. DFT/TDDFT calculations were performed to compute the effect of p-linkers and acceptors-steered modulation on electronic, photophysical and NLO properties of JK-201 and JK-D1–JK-D12. Results illustrate that computed kmax (484.74 nm) and experimentally calculated kmax (481 nm) of JK-201 was found in good agreement. Maximum red shifted absorption spectrum was observed in JK-D12 with 599.38 nm. JK-D1–JK-D12 showed narrow energy gap and broader absorption spectrum as compared to JK-201. NBO analysis con?rmed the formation of charge separation state due to robust range of electrons/charge transfer from donor to acceptor via p-bridge. Giant NLO response was observed in all compounds. Particularly, JK-D12 displayed surprisingly large hai and btot computed 1376.74 (a.u.) and 405,731.84 (a.u.) respectively. Although literature is ?ooded with D–p–A compounds investigated for their DSSCs properties, but research reports on their NLO properties and utilization as NLO materials are completely deserted. Our research will open new horizons to explore DSSCs materials for NLO applications. This theoretical framework also exposed that ?uorene-substituted chromophores are excellent NLO candidates for modern hi-tech applications.
关键词： D–p–A organic chromophores,Acceptor units,Molecular modeling,Density functional theory,NLO response properties,p-Conjugated linkers
更新于2025-09-23 15:22:29
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Theoretical and Conceptual Framework to Design Efficient Dye-Sensitized Solar Cells (DSSCs): Molecular Engineering by DFT Method
摘要： Herein, eight new donor-p-acceptor organic dyes namely M1–M8 have been theoretically investigated for their potential in optoelectronic properties. The M1–M8 were designed through structural modi?cation of p-conjugated bridge of reference reported molecule IC2. The designed molecules contain Indolo[3,2,1-jk]carbazole as core donor unit and end capped cyanoacrylic acid as acceptor unit. DFT and TDDFT calculations using B3LYP, CAM-B3LYP, xB97XD and M062X functional were performed to evaluate the photophysical and photovoltaic properties. Results indicate that HOMO–LUMO energy gaps in M1–M8 have been found smaller than IC2. Among all, M7 is a material with lowest energy gap 2.61 eV, red shifted absorption wavelength value 436 nm. Results of the calculated redox potential of the ground state, vertical excitation energy of the dye, oxidation potential of the dye in the excited state, free energy change for electron injection, dye regeneration and open circuit photovoltage and light harvesting ef?ciency indicates that p-bridges in M1–M8 would show better power conversion ef?ciency than IC2. Especially, dye M7 with p-bridge 5-(thiazol-5yl)thiazole is found to be the most promising candidate for highly effective DSSCs properties. This theoretical framework may provide new ways for experimentalists to design high-performance DSSCs materials for optoelectronic applications.
关键词： Molecular modeling,p-conjugated linkers,Indolo[3,2,1-jk]carbazole,DSSCs
更新于2025-09-23 15:21:01
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First theoretical probe for efficient enhancement of nonlinear optical properties of quinacridone based compounds through various modifications
摘要： In this study, first attempt has been made for theoretical designing of quinacridone (QA) dye and new QA-based compounds (QA-1 to QA-9) were proposed by installing auxiliary donors (dimethylvinyl, methoxy, and N,N-dimethylamine), donor (diphenylamine) and acceptors (cyanoacrylic acid, CN and NO2) segments into fixed π-bridge QA. DFT and TDDFT calculations with B3LYP/6-31G(d,p) and CAM-B3LYP/6-31G(d,p) functional were used to shed light on the promising structure, charge transport and NLO properties. Introduction of auxiliary donors/donor and acceptor successfully modified the structure which led to superior NLO properties. An eye-catching NLO response was observed in all designed compounds. Interestingly, QA-9 exhibits appealingly large enhancement in NLO properties through ICT process with < α > and βtot computed to be 716.02 (a.u) and 128082.15 (a.u) respectively. UV–Vis results indicates the QA-9 most red shifted among all studied compounds with λmax = 489.02 nm. QA-1 to QA-9 showed narrow HOMO-LUMO energy gap as compared to QA which results in enhanced NLO response. NBO analysis confirms the formation of charge separation state in QA-1 to QA-9 due to successful migration of electrons from auxiliary donors/donor to acceptors via π-bridge. The present research evokes the scientific interest regarding the development of QA based tempting NLO compounds that can be beneficial in modern hi-tech applications.
关键词： Density functional theory,Molecular modeling,Quinacridone-based dyes,Donor and acceptor units,NLO properties,Two-state model
更新于2025-09-23 15:21:01
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Molecular modelling and optical properties of a novel fluorinated chalcone
摘要： Chalcones exhibit a broad spectrum of biological activities, mainly due to a,b-unsaturated ketone, and are precursors of the biosynthesis of flavonoids present in plants. These compounds have been shown to be useful in the biological approach, proven by the broad spectrum of biological activities reported, and also in the technological approach, considering their potential as nonlinear optic (NLO) material. In this context, this work aimed to examine the crystallization and characterization of fluorinated chalcone (E)-1-(4-fluorophenyl)-3-(4-isopropylphenyl)prop-2-en-1-one (DFC). A comprehensive structural study of DFC was carried out to understand the process of stabilizing the crystalline lattice through X-ray diffraction, infrared spectroscopy, and molecular modeling studies. Finally, the electrical properties of DFC were calculated by using the supermolecule method (SM). DFC molecules are connected by means of CAH···O and CAH···F intermolecular contacts, forming dimers which play an important role in the stabilization of crystal packing. Molecular modeling studies indicated that this compound could act as an anti-tuberculosis ligand because of its high binding affinity with the M. tuberculosis enoyl-acyl carrier protein, InhA. On the other hand, theoretical calculations were performed to evaluate the NLO properties of DFC and indicated that it showed good potential.
关键词： NLO properties,Molecular modeling,Fluorinated chalcone
更新于2025-09-23 15:19:57
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Synthesis and characterization of novel tetra anchoring A2-D-D-D-A2 architecture sensitizers for efficient dye-sensitized solar cells
摘要： Novel metal free organic dyes coded TET(RA)4, TET(CA)4, and TET(QA)4 were designed, synthesized, and characterized as effective sensitizers for dye sensitized solar cells (DSSCs). These new push-pull sensitizers used a strong electron donor consisting of 3,4-ethylenedioxythiophene and two triphenylamine molecules connected together to form a TPA-EDOT-TPA (TET) motif, which is directly connected to tetra anchoring groups (A) without any π-spacers to construct A2-D-D-D-A2 architecture, three different anchoring series, viz. rhodanine-3-acetic acid (RA), cyanoacetic acid (CA), and 2-methyl quinoline-6-carboxylic acid (QA) were employed to investigate the influence of anchoring moieties on the electrochemical, thermodynamic, kinetics, and photovoltaic efficiency of DSSCs. The DSSCs devices showed a maximum overall power conversion efficiency (PCE) = 5.13%, short-circuit current density (JSC) = 12.71 mA.cm?2, open circuit voltage (VOC) = 0.62 V, and fill factor (FF) = 65.36% with a maximum incident photon conversion efficiency (IPCE) = 75% for TET(QA)4. The optical and electrochemical studies showed that TET(QC)4 achieved higher electron injection free energy (ΔG°inj) into CB edge of TiO2 as well as high recombination resistance (Rrec) compared to TET(RA)4, and TET(CA)4, which explains the outstanding charge separation and superior power conversion efficiency (PCE) of TET(QC)4 possessing quinoline-6-carboxylic acid (QC) anchoring group. Molecular modeling calculations using DFT and TD-DFT showed effective charge separation, where HOMO is delocalized over the donor scaffold (TPA-EDOT-TPA), and the LUMO is delocalized over only two anchoring groups on the same side of the donor system, which provides strong HOMO-LUMO overlap as well as intimate electronic coupling with TiO2 nanoparticle surface for electron injection. Further, the calculated values of the energy gaps (E0-0) and ground/excited stated oxidation potentials were in perfect agreement with the experimental results.
关键词： Sensitizers,Molecular modeling,Photovoltaics,Synthesis,Energy conversion
更新于2025-09-16 10:30:52
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Synthesis, characterization, biological activity and theoretical studies of a 2-amino-6-methoxybenzothiazole-based fluorescent Schiff base
摘要： A new Schiff base, (E)-3,5-dimethoxy-2-((6-methoxybenzo[d]thiazol-2-ylimino)methyl)- phenol, was prepared from the reaction of 2-amino-6-methoxybenzothiazole and 2-hydroxy-4,6-dimethoxybenzaldehyde and characterized with elemental analysis, FTIR, UV-VIS, NMR and single crystal X-ray diffraction techniques. Frontier molecular orbitals, molecular electrostatic potential, and chemical reactivity descriptors of the synthesized compound were studied using molecular modeling methods. The antibacterial and antifungal activities of the Schiff base were studied for its minimum inhibitory concentration. The compound showed a higher effect on yeast than against bacteria. The interactions of the compound with DNA were studied with the ultraviolet-visible (UV-VIS) spectra and gel electrophoresis method. The experimental results indicated that the 2-amino-6-methoxybenzothiazole-based Schiff base could bind to DNA via an intercalative mode and showed that it cleaved DNA without the need for external agents. Additionally, the Schiff base showed colorimetric sensor properties for fluoride and cyanide anions in dimethyl sulfoxide.
关键词： Biological activities,Molecular modeling,DNA binding,2-amino-6-methoxybenzothiazole,Sensors
更新于2025-09-10 09:29:36
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Structure-property relationship of novel monosubstituted Ru (II) complexes for high photocurrent and high efficiency DSSCs: Influence of donor versus acceptor ancillary ligand on DSSCs performance
摘要： Two novel high molar extinction coefficient monosubstituted-bipy Ru (II) complexes, IA-5 and IA-6, based on D-D-π and π-A-π-A ancillary ligands were synthesized with the aid of Knoevenagel reaction, to study the influence of the electron donor and electron acceptor ancillary ligand and number of anchoring group (COOH) on the light harvesting efficiency (LHE), ground and excited state oxidation potentials, incident-photon-to-current conversion efficiency (IPCE), short-circuit photocurrent density (J), and total solar-to-electric conversion efficiency (%η) for DSSCs, and their device performances were studied and showed a maximum of PCE of 7.81% (JSC = 17.61 mA cm?2, VOC = 0.69 V and FF = 64.05%) for dye IA-6 compared to PCE of 7.74% (JSC = 15.83 mA cm?2, VOC = 0.74 V and FF = 65.37%) for N719 dye. The photophysical and photoelectrochemical properties discussed herein addressed the significant impact of the electron donor and electron acceptor ancillary ligand and the number of anchoring groups on JSC and %η in DSSCs. The molecular structures of IA-5 and IA-6 were characterized using UV–Vis, emission spectrophotometry, FT-IR, ESI-MS, and 1H NMR. To probe the interrelationship between the chemical structure, photophysical and photoelectrochemical properties, molecular modeling studies, implemented in Gaussian, were employed. DFT/TD-DFT calculations were used to calculate the thermodynamics and electronic properties of IA-5 and IA-6 including HOMO and LUMO isosurfaces, lowest singlet-singlet electronic transitions (E0-0), ground and excited states oxidation potentials, GSOP and ESOP, which were in excellent agreement with the experimental results. Surprisingly, the insertion of the strong electron acceptor benzodithiazole in the ancillary ligand of IA-5 showed that the frontier LUMO shifted by 100% from 2,2′-bipyridyl-4,4′-dicarboxlic acid to the ancillary ligand containing benzodithiazole with electron injection accomplished from the anchoring group tethered to benzodithiazole. This new finding of relocating the LUMO from bipy-dicarboxylic acid to the other ancillary ligand would open the door for the molecular engineering of better light harvesting and more efficient Ru (II) complexes for DSSCs.
关键词： DFT and TD-DFT,Electron acceptor,Dye solar cells,Molecular modeling,Electron donor,Solar-to-electric conversion
更新于2025-09-10 09:29:36