Combined electrospray ionization source with a velocity map imaging spectrometer for studying large gas phase molecular ions.

We present a new compact and versatile experimental set-up that has been designed to perform electron and ion imaging experiments on large multiply charged gas phase molecular and cluster species. It combines an electrospray ionization source, a quadrupole mass filter guiding ion optics and a velocity map imaging spectrometer. Characterization of the spectrometer has been performed on atomic ions. Results obtained on molecular species (stilbene 420 dianions) demonstrate the possibility offered by this experimental set-up.

Ion trajectory simulations in a high-pressure cylindrical ion trap.

We present the simulation of a cylindrical ion trap (CIT) at high pressure (5-25 Torr range). SIMION 7.0 software was used for the simulations. The effect of pressure, RF frequency and trap dimensions has been investigated. The shape of stability diagrams at non-zero pressure is drastically different from the one observed in vacuum. Preliminary experimental results are shown, using a r = z = 3 mm-long CIT at 12 Torr for trapping peptide and protein ions.

Theoretical evidence for temperature-induced proton mobility in isolated lysine-rich polyalanines.

A multistate molecular mechanics method is introduced to model the possible competition between various protonation sites in gas-phase biomolecules with excess protons. The method relies on the Amber force field for each site and is calibrated against density-functional theory benchmark calculations at the 6-31+G(d,p) level. In its adiabatic version, where it has similarities with constant-pH algorithms, the model predicts that the small protonated Ala(4)-Lys peptide, unprotected at the N-terminus, changes protonation site above 400 K. In the larger [Ala(9)-Lys+H ](+) peptide, the proton remains at the lysine amine group in a favored charge/electric dipole conformation. In the three-state Ala(4)-Lys-Ala(4)-Lys peptide, the excess proton is found to be partially delocalized on the amine group of the first lysine and on the N-terminus. The statistical properties of the protonated peptides are found to significantly depend on the localized character of the proton. Finally, the model is extended by considering possible couplings between the protonation sites, in an empirical valence-bond version. Strong couplings can stabilize the peptides into unexpected proton-bound conformations over broad ranges of temperature.

Asymmetric top rotors in electric fields. II. Influence of internal torsions in molecular beam deflection experiments.

We report on electric deflection experiments of aminobenzonitrile and (dimethylamino)benzonitrile molecules. They are used as prototypes to study the influence of the asymmetry and rotation-vibration couplings in deflection experiments. Experimental deflection profiles are compared to results of ab initio calculations in the frame of the rigid rotor Stark effect and of the statistical linear response. The change in symmetry and the introduction of methyl groups lead to a transition from the rigid rotor response to the linear response. From the experimental results, a total dipole of mu = 6.2 +/- 0.6 D has been deduced for the m-(dimethylamino)benzonitrile molecule (MDMABN).

Performances of Wang-Landau algorithms for continuous systems.

The relative performances of different implementations of the Wang-Landau method are assessed on two classes of systems with continuous degrees of freedom, namely, two polypeptides and two atomic Lennard-Jones clusters. Parallel tempering Monte Carlo simulations serve as a reference, and we pay particular attention to the variations of the multiplicative factor f during the course of the simulation. For the systems studied, the Wang-Landau method is found to be of comparable accuracy as parallel tempering, but has significant difficulties in reproducing low-temperature transitions exhibited by the Lennard-Jones clusters at low temperature. Using a complementary order parameter and calculating a two-dimensional joint density of states significantly improves the situation, especially for the notoriously difficult LJ(38) system. However, while parallel tempering easily converges for LJ(31), we have not been able to get data of comparable accuracy with Wang-Landau multicanonical sampling.

Asymmetric top rotors in electric fields: influence of chaos and collisions in molecular beam deflection experiments.

We report on electric deflection experiments of structural isomers of aminobenzonitrile. They are used as models to study the influence of the asymmetry of a molecule on the molecule-electric field interaction. Experimental deflection profiles are compared to Stark effect calculations. We found increasing deviations from the calculated Stark effect behavior with increasing asymmetry. This deviation is induced by interactions with other particles and is directly related to the chaotic behavior of the rotational motion of asymmetric rotors in a static electric field.

Vibration induced electric dipole in a weakly bound molecular complex.

A strong electric susceptibility is measured as a function of temperature in a molecular dimer which is weakly bound by a pair of hydrogen bonds. This system is a remarkable example where the dominant term in the susceptibility is due to a vibration induced electric dipole. As a consequence, the averaged square of the dipole moment varies linearly with the temperature and the susceptibility does not follow the usual 1/T Curie law. this spectacular effect demonstrates the importance of dynamics to interpret the properties of weakly bound complexes.