Molecules with zwitterionic characteristics exhibit significant potential for utilization in nonlinear optics, optoelectronics, and organic lasers owing to their large dipole moments. Recently, the synthesized compound 2,4-bis (4,5-diphenyl-1H-imidazol-2-yl) phenol (2,4-bImP) by Sakai et al. has been noticed for its unique photochromic properties in solvents [J. Phys. Chem. A, 125 (2021), 4784-4792]. The observed fluorescence in chloroform was attributed to the keto tautomer. Based on the excited state intramolecular proton transfer, the photochromism of 2,4-bImP in chloroform was interpreted as zwitterion production. However, the zwitterion with a specific electronic structure can be in resonance with the conventional neutral structure. The impact of the resonance contribution from the zwitterion and the conventional neutral structure on fluorescence attribution was not taken into account in the previous studies. In this investigation, the ESIPT mechanism of the 2,4-bImP in chloroform has been explored using both the density functional theory and the time-dependent density functional theory. The optimized geometric configuration parameters illustrate the molecular resonant properties. The calculated fluorescence spectra on the basis of the optimization results further corroborate that the fluorescence peaks after proton transfer originates from the resonance of the zwitterionic and the neutral configuration. The zwitterionic nature of the molecule was demonstrated by electrostatic potential and atomic dipole modified Hesfeld atomic charge (ADCH) analysis. Furthermore, the characterization of potential energy curves and IR spectrum further verified the resonance of both the zwitterionic and neutral structures. The results reveal that the 2,4-bImP molecule generates the neutral o-quinoid structure and the zwitterionic structure resonance phenomenon following ESIPT. The aforementioned resonance structure offers novel insights into the ascription of fluorescence. These discoveries establish the theoretical foundation for the exploration and development of zwitterions.
The short-range charge transfer of DNA base triplets has wide application prospects in bioelectronic devices for identifying DNA bases and clinical diagnostics, and the key to its development is to understand the mechanisms of short-range electron dynamics. However, tracing how electrons are transferred during the short-range charge transfer of DNA base triplets remains a great challenge. Here, by means of ab initio molecular dynamics and Ehrenfest dynamics, the nuclear-electron interaction in the thymine-adenine-thymine (TAT) charge transfer process is successfully simulated. The results show that the electron transfer of TAT has an oscillating phenomenon with a period of 10 fs. The charge density difference proves that the charge transfer proportion is as high as 59.817% at 50 fs. The peak position of the hydrogen bond fluctuates regularly between -0.040 and -0.056. The time-dependent Marcus-Levich-Jortner theory proves that the vibrational coupling between nucleus and electron induces coherent electron transfer in TAT. This work provides a real-time demonstration of the short-range coherent electron transfer of DNA base triplets and establishes a theoretical basis for the design and development of novel biological probe molecules.
Electrons , Thymine , Thymine/chemistry , Electron Transport , Molecular Dynamics Simulation , DNA/chemistry
The compound in solvents with triple fluorescence feature of excited state intramolecular proton transfer (ESIPT) has a broad prospect in fluorescent probes, dye sensors and molecular synthesis of photosensitive dyes. An ESIPT molecule hydroxy-bis-2,5-disubstituted-1,3,4-oxadiazoles (compound 1a) emits two fluorescence peaks in dichloromethane (DCM) and three fluorescence peaks in dimethyl sulfoxide (DMSO). [Dyes and Pigments 197 (2022) 109927]. Two longer peaks were attributed to enol and keto emission in both solvents and the shortest third peak in DMSO was just attributed simply. However, there is a significant difference in proton affinity between DCM and DMSO solvents which has influence on the position of emission peaks. Therefore, the correctness of this conclusion needs to be further verified. In this research, density functional theory and time-dependent density functional theory method are used to explore ESIPT process. Optimized structures indicate ESIPT occurs through molecular bridge assisted by DMSO. The calculated fluorescence spectra demonstrate two peaks indeed originated from enol and keto in DCM, while interestingly three peaks are originated from enol, keto and intermediate in DMSO. Infrared spectrum, electrostatic potential and potential energy curves further prove existence of three structures. We reveal the mechanisms that compound 1a molecule occurs ESIPT in DCM solvent and undergoes an ESIPT through assisted by DMSO molecular bridge. Additionally, three fluorescence peaks in DMSO are reattributed. Our work is expected to provide an insight for understanding intra- and intermolecular interactions and synthesis of efficient organic lighting-emitting molecule.
Dimethyl Sulfoxide , Protons , Spectrometry, Fluorescence , Solvents/chemistry , Fluorescent Dyes/chemistry
Fluorescent probes with excited state intramolecular proton transfer (ESIPT) properties play a significant role in the research of life science and material science. Guo et al. designed 3-hydroxy-2-(6-Methoxynaphthalen-2-yl)-4H-chromen-4-one (MNC) as a control to achieve the dual-color fluorescence imaging of lipid droplets and endoplasmic reticulum (ER). They deemed that the ESIPT process would be turned off in ER with high water content [J. Am. Chem. Soc. 2021, 143, 3169-3179]. However, contrary to the conventional ESIPT off case, the enol* state fluorescence intensity that should have been enhanced was severely quenched in water. Here, combined with ultrafast spectrum, steady-state fluorescence spectrum and potential energy surface, the mechanism of ESIPT process of MNC turned off in water is revised. Furthermore, the formation of aggregated states in water is responsible for the quenching of MNC fluorescence. This work is expected to provide broader ideas for the design of hydrophobic fluorescent probes.
Fluorescent Dyes , Protons , Fluorescent Dyes/chemistry , Water/chemistry , Spectrometry, Fluorescence
The stimulus-responsive smart switching of aggregation-induced emission (AIE) features has attracted considerable attention in 4D information encryption, optical sensors and biological imaging. Nevertheless, for some AIE-inactive triphenylamine (TPA) derivatives, activating the fluorescence channel of TPA remains a challenge based on their intrinsic molecular configuration. Here, we took a new design strategy for opening a new fluorescence channel and enhancing AIE efficiency for (E)-1-(((4-(diphenylamino)phenyl)imino)methyl)naphthalen-2-ol. The turn-on methodology employed is based on pressure induction. Combining ultrafast and Raman spectra with high-pressure in situ showed that activating the new fluorescence channel stemmed from restraining intramolecular twist rotation. Twisted intramolecular charge transfer (TICT) and intramolecular vibration were restricted, which induced an increase in AIE efficiency. This approach provides a new strategy for the development of stimulus-responsive smart-switch materials.
Stimuli-responsive luminogens with aggregation-induced emission and excited state intramolecular proton transfer (ESIPT) properties have applications in storage devices, anti-counterfeiting, imaging, and sensors. Nevertheless, group rotation appears in twisted intramolecular charge transfer (TICT) state, resulting in decreased fluorescence intensity. Inhibiting TICT remains a challenge based on their intrinsic molecular configuration. Herein, we present a simple facile pressure-induced method to restrict the TICT behavior. Steady-state spectroscopy measurement shows that fluorescence enhancement and color shifts can be achieved under high pressure. Combined with in situ high-pressure ultrafast spectroscopy and theoretical calculations, the TICT behavior was restricted in two aspects. The ESIPT process was damaged, hence more particles stored in the E* state, and transferred to the TICT state hardly. Also, the rotation of (E)-dimethyl5-((4-(diethylamino)-2-hydroxybenzylidene)amino)isophthalate (SBOH) was restricted, significantly increasing the fluorescence intensity. This approach provides a new strategy for the development of stimulus-responsive materials.
The vibrational coupling between the nucleus and electrons is an important factor in determining the ultrafast charge transfer rate of DNA biological systems. However, in most typical DNA base pairs like the guanine-cytosine (G-C) base pair, the vibrational coupling of ultrafast coherent charge transfer has been largely ignored. Here, we simulate the nucleus-electron interaction in the coherent charge transfer of G-C using ab initio molecular dynamics and Ehrenfest dynamics. Interestingly, the charge separation of G-C exhibits clear periodic oscillations. The calculated molecular orbitals, non-covalent interactions, and transition density matrix have oscillations with a period of about 10 fs. The reason behind G-C coherent ultrafast charge transfer is elucidated by examining the regular fluctuations evolving with time of the electron coupling strength, reorganization energy, and free energy. Our research can be extended to longer sequences of biological bases, contributing to the design of flexible, lightweight, and efficient biological DNA detection devices.
Cytosine , Guanine , Quantum Theory , Base Pairing , DNA
We explore the mechanism specifically on quantum yields difference of 2-(4,4-Dimethyl-4,5-dihydrooxazol-2-yl)-3-hydroxybenzonitrile (1-CN) and 4-(4,4-Dimethyl-4,5-dihydrooxazol-2-yl)-3-hydroxybenzonitrile (3-CN) by density functional theory and time-dependent density functional theory within the Tamm-Dancoff approximation. The structures optimization and the potential energy curves scanning of singlet excited state directly prove that the excited state intramolecular proton transfer (ESIPT) can take place in 1-CN and 3-CN molecules. The calculated spectra show that the fluorescence peaks of two molecules come from the emission of keto* configuration. The non-covalent interaction and the atomic dipole moment corrected Hirshfeld charge are also analyzed. Through the comparison of emission oscillator strength between 1-CN and 3-CN molecules suggests that the radiative transition process is not the main reason for the difference on quantum yields. Internal conversion process is also excluded on account of the large energy gap between S0 and S1. Considering the interaction between singlet and triplet states, both molecules can undergo intersystem crossing. The prominent difference is that, compared with 3-CN, the larger spin-orbit coupling constant and smaller energy level difference promote the intersystem crossing process of 1-CN. This provides direct evidence for the fluorescence quantum yield of 1-CN is lower than that of 3-CN. We envision that the present work can provide help for the synthesis and application of ESIPT compounds with high quantum yields.
Förster resonance energy transfer (FRET) and Auger recombination in quantum dots (QDs)-molecules system are important mechanisms for affecting performance of their optoelectronic and photosynthesis devices. However, exploring an effective strategy to promote FRET and suppress Auger recombination simultaneously remains a daunting challenge. Here, we report that FRET process is promoted and Auger recombination process is suppressed in CdTe/CdS QDs-Rhodamine101 (Rh101) molecules system upon compression. The greatly improved FRET is attributed to the shortened donor-acceptor distance and increased the number of molecules attached to QDs induced by pressure. The reduced Auger recombination is ascribed to the formation of an alloy layer at the core/shell interface. The FRET can occur 70 times faster than Auger recombination under a high pressure of 0.9â GPa. Our findings demonstrate that high pressure is a robust tool to boost FRET and simultaneously suppress Auger recombination, and provides a new route to QDs-molecules applications.
Acetylcholinesterase (AChE) is an important kind of esterase that plays a key biological role in the central and peripheral nervous systems. Recent research has demonstrated that some fullerene derivatives serve as a new nanoscale class of potent inhibitors of AChE, but the specific inhibition mechanism remains unclear. In the present article, several molecular modeling methods, such as molecular docking, molecular dynamics simulations and molecular mechanics/generalized Born surface area calculations, were used for the investigation of the binding mode and inhibition mechanism of fullerene inhibitions for AChE. Results revealed that fullerene inhibitors block the entrance of substrates by binding with the peripheral anionic site (PAS) region. Thus, fullerene derivatives might mainly serve as competitive inhibitors. The interactions of a fullerene backbone with AChE are at the same level in different single side chain systems and seem to be related to the length or aromaticity of the side chain. The inhibitor with multihydroxyl side chains shows an obviously large electrostatic interaction as it forms additional hydrogen bonds with AChE. Moreover, fullerene derivatives might exhibit noncompetitive inhibition partly by affecting some secondary structures around them. Thus, the destructions of these secondary structures can lead to conformational changes in some important regions, such as the catalytic triad and acyl pocket. The investigation is of great importance to the discovery of good fullerene inhibitors.Communicated by Ramaswamy H. Sarma.
Acetylcholinesterase/chemistry , Catalytic Domain , Cholinesterase Inhibitors/chemistry , Fullerenes/chemistry , Models, Molecular , Animals , Cluster Analysis , Hydrogen Bonding , Molecular Docking Simulation , Protein Structure, Secondary , Thermodynamics
Glycoside hydrolase cellulase family 6 from Trichoderma reesei (TrCel6A) is an important cellobiohydrolase to hydrolyze cellooligosaccharide into cellobiose. The knowledge of enzymatic mechanisms is critical for improving the conversion efficiency of cellulose into ethanol or other chemicals. However, the process of product expulsion, a key component of enzymatic depolymerization, from TrCel6A has not yet been described in detail. Here, conventional molecular dynamics and steered molecular dynamics (SMD) were applied to study product expulsion from TrCel6A. Tyr103 may be a crucial residue in product expulsion given that it exhibits two different posthydrolytic conformations. In one conformation, Tyr103 rotates to open the -3 subsite. However, Tyr103 does not rotate in the other conformation. Three different routes for product expulsion were proposed on the basis of the two different conformations. The total energy barriers of the three routes were calculated through SMD simulations. The total energy barrier of product expulsion through Route 1, in which Tyr103 does not rotate, was 22.2 kcal·mol-1. The total energy barriers of product expulsion through Routes 2 and 3, in which Tyr103 rotates to open the -3 subsite, were 10.3 and 14.4 kcal·mol-1, respectively. Therefore, Routes 2 and 3 have lower energy barriers than Route 1, and Route 2 is the thermodynamically optimal route for product expulsion. Consequently, the rotation of Tyr103 may be crucial for product release from TrCel6A. Results of this work have potential applications in cellulase engineering.
Cellulose 1,4-beta-Cellobiosidase/chemistry , Fungal Proteins/chemistry , Molecular Dynamics Simulation , Protein Conformation , Trichoderma/enzymology , Amino Acids , Cellulose/chemistry , Hydrogen Bonding , Hydrolysis , Molecular Docking Simulation
OBJECTIVE: To identify the best transfect conditions for lentiviral vector to transfect CD34+ stem cells from human cord blood. METHODS: CD34+ hematopoietic stem cells from human cord blood were transduced with pTRIPdU3-RNAiTALh-EF1a-GFP plasmid expressing GFP by the second generation and third generation lentiviral vector system. The transfect conditions such as the concentration of the virus, polybrene, transfect volume and media, multiplicity of infection (MOI) values, incubating time and centrifugation in 12-well plate at 200 x g were tested to obtain optimal transfect conditions. The number of CFU were counted and the types of CFU were identified by light microscope after the transfected cells (non-infected stem cells served as control) were cultured for 14 days at a 37 degrees C, 5% CO2 incubator. RESULTS: The second-generation lentiviral vector plasmid had higher infect rate than the third-generation. The optimal transfect conditions were determined as: fresh sorting CD34+ cells, 10(7) TU virus concentration, Polybrene 2 microg/mL in opti-MEM medium, centrifuged at 200 x g for 1 h and then co-culture 8 h for cells and virus mixture in one well in flat-bottomed 12-well plate (repeated once). Both infected and non-infected CD34+ stem cells developed CFUs with similar numbers and types of colonies after being cultured for 14 days in the cytokine-containing 1:1 liquid medium/semi-solid medium. CONCLUSION: The identified optimal conditions can enable effective lentiviral vector transduction of CD34+ without interrupting the differentiation potential of the hematopoietic stem cells.
Antigens, CD34 , Genetic Vectors , Hematopoietic Stem Cells , Lentivirus , Transfection/methods , Cell Differentiation , Coculture Techniques , Fetal Blood/cytology , Humans , Plasmids
