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Register a new userSelf-assembly of small molecules at hydrophobic interfaces using group effect
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Although common in nature, the self-assembly of small molecules at sold-liquid interfaces is difficult to control in artificial systems. The high mobility of dissolved small molecules limits their residence at the interface, typically restricting the self-assembly to systems under confinement or with mobile tethers between the molecules and the surface. Small hydrogen-bonding molecules can overcome these issues by exploiting group-effect stabilization to achieve non-tethered self-assembly at hydrophobic interfaces. Significantly, the weak molecular interactions with the solid makes it possible to influence the interfacial hydrogen bond network, potentially creating a wide variety of supramolecular structures. Here we investigate the nanoscale details of water and alcohols mixtures self-assembling at the interface with graphite through group effect. We explore the interplay between inter-molecular and surface interactions by adding small amounts of foreign molecules able to interfere with the hydrogen bond network and systematically varying the length of the alcohol hydrocarbon chain. The resulting supramolecular structures forming at room temperature are then examined using atomic force microscopy with insights from computer simulations. We show that the group-based self-assembly approach investigated here is general and can be reproduced on other substrates such as molybdenum disulphide and graphene oxide, potentially making it relevant for a wide variety of systems.
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We report self-assembly and phase transition behavior of lower diamondoid molecules and their primary derivatives using molecular dynamic (MD) simulation and density functional theory (DFT) calculations. Two lower diamondoids (adamantane and diamantane), three adamantane derivatives (amantadine, memantine and rimantadine) and two artificial molecules (Adamantane+Na and Diamantane+Na) are studied separately in 125-molecule simulation systems. We performed DFT calculations to optimize their molecular geometries and obtain atomic electronic charges for the corresponding MD simulation, by which we obtained self-assembly structures and simulation trajectories for the seven molecules. Radial distribution functions and structure factors studies showed clear phase transitions for the seven molecules.
The interface formation between copper phthalocyanine (CuPc) and two representative metal substrates, i.e., Au and Co, was investigated by the combination of ultraviolet photoelectron spectroscopy and inverse photoelectron spectroscopy. The occupied and unoccupied molecular orbitals and thus the transport band gap of CuPc are highly influenced by film thickness, i.e., molecule-substrate distance. Due to the image charge potential given by the metallic substrates the transport band gap of CuPc opens from $(1.4 pm 0.3)$ eV for 1 nm thickness to $(2.2 pm 0.3)$ eV, and saturates at this value above 10 nm CuPc thickness. The interface dipoles with values of 1.2 eV and 1.0 eV for Au and Co substrates, respectively, predominantly depend on the metal substrate work functions. X-ray photoelectron spectroscopy measurements using synchrotron radiation provide detailed information on the interaction between CuPc and the two metal substrates. While charge transfer from the Au or Co substrate to the Cu metal center is present only at sub-monolayer coverages, the authors observe a net charge transfer from the molecule to the Co substrate for films in the nm range. Consequently, the Fermi level is shifted as in the case of a p-type doping of the molecule. This is, however, a competing phenomenon to the energy band shifts due to the image charge potential.
This study focuses on comparing the individual polymer chain dynamics in an entangled polymeric liquid under different shear and extension rates. Polymer chains under various shear rates and extension rates were simulated using a stochastic-tube model [J. Rheol. 56: 1057 (2012)]. We developed a Matlab code to visualize and analyze the simulated configurations from the stochastic-tube model. We introduced new variables to determine how the extent of linearity changes with time for different shear rates, which is more useful than a typical end-to-end distance analysis. We identified whether the polymer chains undergo a tumbling rotation (slight elongation not accompanying contraction) or flipping rotation (elongation accompanying contraction). The simulation results indicate that the polymer chains exhibit a significant tendency to elongate at higher shear rates and occasionally experience flipping, while lower shear rates tend to exhibit very frequent tumbling. Furthermore, no rotations were observed under extensional flows. These results help clarifying uncertainty of previously proposed polymer deformation mechanisms of the convective constraint release and the configuration-dependent friction coefficient.
The electronic properties of interfaces can depend on their isotopic constitution. One known case is that of cyclohexane physisorbed on Rh(111), in which isotope effects have been measured on the work function change and desorption energies. These effects can only be captured by calculations including nuclear quantum effects (NQE). In this paper, this interface is addressed employing dispersion-inclusive density-functional theory coupled to a quasi-harmonic (QH) approximation for NQE, as well as to fully anharmonic ab initio path integral molecular dynamics (PIMD). The QH approximation is able to capture that deuterated cyclohexane has a smaller adsorption energy and lies about 0.01 A farther from the Rh(111) surface than its isotopologue, which can be correlated to the isotope effect in the work function change. An investigation of the validity of the QH approximation relying on PIMD simulations, leads to the conclusion that although this interface is highly impacted by anharmonic quantum fluctuations in the molecular layer and at bonding sites, these anharmonic contributions play a minor role when analysing isotope effects at low temperatures. Nevertheless, anharmonic quantum fluctuations cause an increase in the distance between the molecular layer and Rh(111), a consequent smaller overall work function change, and intricate changes in orbital hybridization.
We propose using halogenated organic dyes as nanoprobes for electric field and show their greatly enhanced Stark coefficients using density functional theory (DFT) calculations. We analyse halogenated variants of three molecules that have been of interest for cryogenic single molecule spectroscopy, perylene, terrylene, and dibenzoterrylene, with the zero-phonon optical transitions at blue, red, and near infrared. Out of all the combinations of halides and binding sites that are calculated, we have found that fluorination of the optimum binding site induces a dipole difference between ground and excited states larger than 0.5 D for all three molecules with the highest value of 0.69 D for fluoroperylene. We also report on synthesis of 3-fluoroterrylene and bulk spectroscopy of this compound in liquid and solid organic environments.
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