Ursula Rothlisberger

A Hamiltonian electrostatic coupling scheme for hybrid Car-Parrinello molecular dynamics simulations

We present a fully Hamiltonian and computationally efficient scheme to include the electrostatic effects due to the classical environment in a Car–Parrinello mixed quantum Mechanics/molecular mechanics (QM/MM) method. The polarization due to the MM atoms close to the quantum system is described by a Coulombic potential modified at short range. We show that the functional form of this potential has to be chosen carefully in order to obtain the correct interaction properties and to prevent an unphysical escape of the electronic density to the MM atoms (the so-called spill-out effect). The interaction between the QM system and the more distant MM atoms is modeled by a Hamiltonian term explicitly coupling the multipole moments of the quantum charge distribution with the classical point charges. Our approach remedies some of the well known deficiencies of current electrostatic coupling schemes in QM/MM methods, allowing molecular dynamics simulations of mixed systems within a fully consistent and energy conser...

Entropic stabilization of mixed A-cation ABX3 metal halide perovskites for high performance perovskite solar cells

ABX3-type organic lead halide perovskites currently attract broad attention as light harvesters for solar cells due to their high power conversion efficiency (PCE). Mixtures of formamidinium (FA) with methylammonium (MA) as A-cations show currently the best performance. Apart from offering better solar light harvesting in the near IR the addition of methylammonium stabilizes the perovskite phase of FAPbI3 which in pure form at room temperature converts to the yellow photovoltaically inactive δ-phase. We observe a similar phenomenon upon adding Cs+ cations to FAPbI3. CsPbI3 and FAPbI3 both form the undesirable yellow phase under ambient condition while the mixture forms the desired black pervoskite. Solar cells employing the composition Cs0.2FA0.8PbI2.84Br0.16 yield high average PCEs of over 17% exhibiting negligible hysteresis and excellent long term stability in ambient air. We elucidate here this remarkable behavior using first principle computations. These show that the remarkable stabilization of the perovskite phase by mixing the A-cations stems from entropic gains and the small internal energy input required for the formation of their solid solution. By contrast, the energy of formation of the delta-phase containing mixed cations is too large to be compensated by this configurational entropy increase. Our calculations reveal for the first time the optoelectronic properties of such mixed A-cation perovskites and the underlying reasons for their excellent performance and high stability.

Ionic polarization-induced current–voltage hysteresis in CH3NH3PbX3 perovskite solar cells

CH3NH3PbX3 (MAPbX3) perovskites have attracted considerable attention as absorber materials for solar light harvesting, reaching solar to power conversion efficiencies above 20%. In spite of the rapid evolution of the efficiencies, the understanding of basic properties of these semiconductors is still ongoing. One phenomenon with so far unclear origin is the so-called hysteresis in the current–voltage characteristics of these solar cells. Here we investigate the origin of this phenomenon with a combined experimental and computational approach. Experimentally the activation energy for the hysteretic process is determined and compared with the computational results. First-principles simulations show that the timescale for MA+ rotation excludes a MA-related ferroelectric effect as possible origin for the observed hysteresis. On the other hand, the computationally determined activation energies for halide ion (vacancy) migration are in excellent agreement with the experimentally determined values, suggesting that the migration of this species causes the observed hysteretic behaviour of these solar cells.

Structural and electronic properties of sodium microclusters (n=2–20) at low and high temperatures: New insights from ab initio molecular dynamics studies

We present the results of extensive computer simulations of several sodium microclusters, using the Car–Parrinello method (unified density‐functional theory and molecular dynamics). Dynamical simulated annealing strategies are adopted in the search for low‐energy minima of the potential energy surface. A detailed analysis of the results for both structural and electronic properties at temperatures in the 0–600 K range is carried out, which allows us for the first time to gain insight into the structural ‘‘growth’’ pattern, the extent of the validity of (spherical, spheroidal, and ellipsoidal) jellium models, and the effects of temperature. In particular, new and unforeseen structures are discovered for n=10, 13, 18, and 20 and we emphasize the constant presence of arrangements with local pentagonal symmetry for the low‐energy isomers as well as the similarity of the structural pattern with that of Lennard‐Jones systems. Shape transformations with increasing temperature are observed, ‘‘rigidity’’ and ‘‘non...

Quantitative Photo Activated Localization Microscopy: Unraveling the Effects of Photoblinking

In this work we discuss how to use photophysical information for improved quantitative measurements using Photo Activated Localization Microscopy (PALM) imaging. We introduce a method that reliably estimates the number of photoblinking molecules present in a biological sample and gives a robust way to quantify proteins at the single-cell level from PALM images. We apply this method to determine the amount of β2 adrenergic receptor, a prototypical G Protein Coupled Receptor, expressed on the plasma membrane of HeLa cells.

Sodium cluster ionisation potentials revisited: Higher-resolution measurements for Nax (x<23) and their relation to bonding models

Controversy regarding the interpretation of photoionization efficiency measurements obtained for alkali clusters provided impetus for higher-resoln. (3.3 nm) studies . The new data cover the full range of cluster sizes: Nax, x <23. Methods of assigning ionization potentials are discussed, and the resulting nos. are compared with predictions from various model calcns. [on SciFinder (R)]

Ligand substitutions between ruthenium–cymene compounds can control protein versus DNA targeting and anticancer activity

Ruthenium compounds have become promising alternatives to platinum drugs by displaying specific activities against different cancers and favourable toxicity and clearance properties. Nonetheless, their molecular targeting and mechanism of action are poorly understood. Here we study two prototypical ruthenium-arene agents—the cytotoxic antiprimary tumour compound [(η6-p-cymene)Ru(ethylene-diamine)Cl]PF6 and the relatively non-cytotoxic antimetastasis compound [(η6-p-cymene)Ru(1,3,5-triaza-7-phosphaadamantane)Cl2]—and discover that the former targets the DNA of chromatin, while the latter preferentially forms adducts on the histone proteins. Using a novel ‘atom-to-cell’ approach, we establish the basis for the surprisingly site-selective adduct formation behaviour and distinct cellular impact of these two chemically similar anticancer agents, which suggests that the cytotoxic effects arise largely from DNA lesions, whereas the protein adducts may be linked to the other therapeutic activities. Our study shows promise for developing new ruthenium drugs, via ligand-based modulation of DNA versus protein binding and thus cytotoxic potential, to target distinguishing epigenetic features of cancer cells.

Structure and Dynamics of Liquid Water from ab Initio Molecular Dynamics—Comparison of BLYP, PBE, and revPBE Density Functionals with and without van der Waals Corrections

We investigate the accuracy provided by different treatments of the exchange and correlation effects, in particular the London dispersion forces, on the properties of liquid water using ab initio molecular dynamics simulations with density functional theory. The lack of London dispersion forces in generalized gradient approximations (GGAs) is remedied by means of dispersion-corrected atom-centered potentials (DCACPs) or damped atom-pairwise dispersion corrections of the C6R(-6) form. We compare results from simulations using GGA density functionals (BLYP, PBE, and revPBE) with data from their van der Waals (vdW) corrected counterparts. As pointed out previously, all vdW-corrected BLYP simulations give rise to highly mobile water whose softened structure is closer to experimental data than the one predicted by the bare BLYP functional. Including vdW interactions in the PBE functional, on the other hand, has little influence on both structural and dynamical properties of water. Augmenting the revPBE functional with either damped atom-pairwise dispersion corrections or DCACP evokes opposite behaviors. The former further softens the already under-structured revPBE water, whereas the latter makes it more glassy. These results demonstrate the delicacy needed in describing weak interactions in molecular liquids.

Importance of van der Waals interactions in liquid water.

We present ab initio molecular dynamics studies on liquid water using density functional theory in conjunction with either dispersion-corrected atom-centered potentials or empirical van der Waals corrections. Our results show that improving the description of van der Waals interactions in DFT-GGA leads to a softening of liquid waters structure with higher mobility. The results obtained with dispersion-corrected atom-centered potentials are especially encouraging. In particular, the radial distribution functions are in better agreement with experiment, and the self-diffusion coefficient increases by more than three-fold compared with the one predicted by the BLYP functional. This work demonstrates that van der Waals interactions are essential in fine-tuning both structural and dynamical properties of liquid water.

Identification of clustering artifacts in photoactivated localization microscopy

Keywords: Fluorescent Protein Reference EPFL-ARTICLE-167359doi:10.1038/nmeth.1627View record in Web of Science Record created on 2011-07-04, modified on 2017-05-12