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  • 1
    In: The Journal of Chemical Physics, AIP Publishing, Vol. 157, No. 17 ( 2022-11-07)
    Abstract: Time-dependent photodetachment action spectra for the linear hydrocarbon anions C4H− and C6H− are investigated using the cryogenic Double ElectroStatic Ion Ring ExpEriment. The radiative cooling characteristics of these ions on the millisecond to seconds timescale are characterized by monitoring changes in their spectra as the ions cool by spontaneous infrared (IR) emission. The average cooling rates, extracted using Non-negative Matrix Factorization, are fit with 1/e lifetimes of 19 ± 2 and 3.0 ± 0.2 s for C4H− and C6H−, respectively. The cooling rates are successfully reproduced using a simple harmonic cascade model of IR emission. The ultraslow radiative cooling dynamics determined in this work provide important data for understanding the thermal cooling properties of linear hydrocarbon anions and for refining models of the formation and destruction mechanisms of these anions in astrochemical environments.
    Type of Medium: Online Resource
    ISSN: 0021-9606 , 1089-7690
    Language: English
    Publisher: AIP Publishing
    Publication Date: 2022
    detail.hit.zdb_id: 3113-6
    detail.hit.zdb_id: 1473050-9
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  • 2
    In: Structural Dynamics, AIP Publishing, Vol. 4, No. 4 ( 2017-07-01)
    Abstract: Mix-and-inject serial crystallography (MISC) is a technique designed to image enzyme catalyzed reactions in which small protein crystals are mixed with a substrate just prior to being probed by an X-ray pulse. This approach offers several advantages over flow cell studies. It provides (i) room temperature structures at near atomic resolution, (ii) time resolution ranging from microseconds to seconds, and (iii) convenient reaction initiation. It outruns radiation damage by using femtosecond X-ray pulses allowing damage and chemistry to be separated. Here, we demonstrate that MISC is feasible at an X-ray free electron laser by studying the reaction of M. tuberculosis ß-lactamase microcrystals with ceftriaxone antibiotic solution. Electron density maps of the apo-ß-lactamase and of the ceftriaxone bound form were obtained at 2.8 Å and 2.4 Å resolution, respectively. These results pave the way to study cyclic and non-cyclic reactions and represent a new field of time-resolved structural dynamics for numerous substrate-triggered biological reactions.
    Type of Medium: Online Resource
    ISSN: 2329-7778
    Language: English
    Publisher: AIP Publishing
    Publication Date: 2017
    detail.hit.zdb_id: 2758684-4
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  • 3
    Online Resource
    Online Resource
    AIP Publishing ; 2021
    In:  The Journal of Chemical Physics Vol. 154, No. 21 ( 2021-06-07)
    In: The Journal of Chemical Physics, AIP Publishing, Vol. 154, No. 21 ( 2021-06-07)
    Abstract: Benchmarking calculations on excited states of models of phenylalanine protein chains are presented to assess the ability of alternative methods to the standard and most commonly used multiconfigurational wave function-based method, the complete active space self-consistent field (CASSCF), in recovering the non-dynamical correlation for systems that become not affordable by the CASSCF. The exploration of larger active spaces beyond the CASSCF limit is benchmarked through three strategies based on the reduction in the number of determinants: the restricted active space self-consistent field, the generalized active space self-consistent field (GASSCF), and the occupation-restricted multiple active space (ORMAS) schemes. The remaining dynamic correlation effects are then added by the complete active space second-order perturbation theory and by the multireference difference dedicated configuration interaction methods. In parallel, the approximate second-order coupled cluster (CC2), already proven to be successful for small building blocks of model proteins in one of our previous works [Ben Amor et al., J. Chem. Phys. 148, 184105 (2018)], is investigated to assess its performances for larger systems. Among the different alternative strategies to CASSCF, our results highlight the greatest efficiency of the GASSCF and ORMAS schemes in the systematic reduction of the configuration interaction expansion without loss of accuracy in both nature and excitation energies of both singlet ππ* and nπ*CO excited states with respect to the equivalent CASSCF calculations. Guidelines for an optimum applicability of this scheme to systems requiring active spaces beyond the complete active space limit are then proposed. Finally, the extension of the CC2 method to such large systems without loss of accuracy is demonstrated, highlighting the great potential of this method to treat accurately excited states, mainly single reference, of very large systems.
    Type of Medium: Online Resource
    ISSN: 0021-9606 , 1089-7690
    Language: English
    Publisher: AIP Publishing
    Publication Date: 2021
    detail.hit.zdb_id: 3113-6
    detail.hit.zdb_id: 1473050-9
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  • 4
    Online Resource
    Online Resource
    AIP Publishing ; 2020
    In:  Physics of Fluids Vol. 32, No. 6 ( 2020-06-01)
    In: Physics of Fluids, AIP Publishing, Vol. 32, No. 6 ( 2020-06-01)
    Abstract: We investigate the dynamics of spontaneous jumps of water drops from electrically charged nonwetting dielectric substrates during sudden step reductions in the gravity level. In the free-fall environment of a drop tower, the dynamics of drops subject to external electric fields are dominated by the Coulombic force instead of gravity. These forces lead to a drop bouncing behavior similar to well-known terrestrial phenomena though occurring for much larger drops (∼0.5 ml). We provide a one-dimensional model for the phenomenon, its scaling, and asymptotic estimates for drop time-of-flight in two regimes: at short-times close to the substrate when drop inertia balances the Coulombic force due to net free charge and image charges in the dielectric substrate, and at long-times far from the substrate when drop inertia balances free charge Coulombic force and drag. In both regimes, the dimensionless electrostatic Euler number Eu, which is a ratio of inertia to electrostatic force, appears as a key parameter.
    Type of Medium: Online Resource
    ISSN: 1070-6631 , 1089-7666
    Language: English
    Publisher: AIP Publishing
    Publication Date: 2020
    detail.hit.zdb_id: 1472743-2
    detail.hit.zdb_id: 241528-8
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  • 5
    Online Resource
    Online Resource
    AIP Publishing ; 1997
    In:  The Journal of Chemical Physics Vol. 106, No. 12 ( 1997-03-22), p. 5254-5259
    In: The Journal of Chemical Physics, AIP Publishing, Vol. 106, No. 12 ( 1997-03-22), p. 5254-5259
    Abstract: We report direct spectroscopic evidence for parity-forbidden electronic transitions in CdSe nanocrystals and relate it through perturbation theory to an internal electric field. This field is consistent with an estimated spontaneous polarization of Ps=−0.6 μC/cm2 for CdSe. The observed mixing of odd and even band edge hole states by this symmetry breaking internal electric field indicates that current theories of nanocrystal electronic structure, which assume inversion symmetry, require substantial revision.
    Type of Medium: Online Resource
    ISSN: 0021-9606 , 1089-7690
    Language: English
    Publisher: AIP Publishing
    Publication Date: 1997
    detail.hit.zdb_id: 3113-6
    detail.hit.zdb_id: 1473050-9
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  • 6
    Online Resource
    Online Resource
    AIP Publishing ; 1996
    In:  The Journal of Chemical Physics Vol. 104, No. 5 ( 1996-02-01), p. 2114-2123
    In: The Journal of Chemical Physics, AIP Publishing, Vol. 104, No. 5 ( 1996-02-01), p. 2114-2123
    Abstract: We report the results of molecular dynamics simulations of Langmuir monolayers of F(CF2)20F using both a united atom model and a recently developed anisotropic united atom model of the molecular force field. A comparison of our simulation results to experimental measures of the structure of Langmuir monolayers and lamellar crystals of F(CF2)20F indicates that the anisotropic united atom model provides the better representation. Simulations using the new model at 275 K generate an azimuthally disordered rotator phase monolayer, while simulations at 150 K generate a monolayer phase with azimuthal order. The relative intensities of peaks in the in-plane structure function can be used to distinguish between the azimuthally ordered and disordered phases. Our simulations also predict, in agreement with experiment, that at large average areas per molecule the monolayer breaks up into islands that have a close-packed structure at the center but are disordered at the periphery.
    Type of Medium: Online Resource
    ISSN: 0021-9606 , 1089-7690
    Language: English
    Publisher: AIP Publishing
    Publication Date: 1996
    detail.hit.zdb_id: 3113-6
    detail.hit.zdb_id: 1473050-9
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  • 7
    In: The Journal of Chemical Physics, AIP Publishing, Vol. 142, No. 12 ( 2015-03-28)
    Abstract: Analytic second derivatives of the energy with respect to nuclear coordinates have been developed for spin restricted density functional theory (DFT) based on the fragment molecular orbital method (FMO). The derivations were carried out for the three-body expansion (FMO3), and the two-body expressions can be obtained by neglecting the three-body corrections. Also, the restricted Hartree-Fock (RHF) Hessian for FMO3 can be obtained by neglecting the density-functional related terms. In both the FMO-RHF and FMO-DFT Hessians, certain terms with small magnitudes are neglected for computational efficiency. The accuracy of the FMO-DFT Hessian in terms of the Gibbs free energy is evaluated for a set of polypeptides and water clusters and found to be within 1 kcal/mol of the corresponding full (non-fragmented) ab initio calculation. The FMO-DFT method is also applied to transition states in SN2 reactions and for the computation of the IR and Raman spectra of a small Trp-cage protein (PDB: 1L2Y). Some computational timing analysis is also presented.
    Type of Medium: Online Resource
    ISSN: 0021-9606 , 1089-7690
    Language: English
    Publisher: AIP Publishing
    Publication Date: 2015
    detail.hit.zdb_id: 3113-6
    detail.hit.zdb_id: 1473050-9
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  • 8
    Online Resource
    Online Resource
    AIP Publishing ; 1973
    In:  The Journal of Chemical Physics Vol. 58, No. 10 ( 1973-05-15), p. 4290-4303
    In: The Journal of Chemical Physics, AIP Publishing, Vol. 58, No. 10 ( 1973-05-15), p. 4290-4303
    Abstract: The transfer of an electron from a metal electrode to an electroactive species in the interface is central to electrochemical equilibrium and kinetic analyses. The purpose of this paper is to present a discussion of the theory of electron transfer based on a linear response analysis. We base our theoretical considerations on the Yamamoto reaction rate theory; Yamamoto's theory is an outgrowth of the Kubo linear response theory. The rate constant and ultimately the exchange current expressions we obtain are derived from a model representation of the electrode interface. This model is a generalization of one considered by Dogonadze and Chizmadzhev. In particular, we examine an outer sphere type transfer mechanism, but we allow for the following effects: (1) the effect of reactant center of mass motions and transport to a most favorable electron exchange configuration, (2) the effect of internal vibronic interactions within the electroactive species, and (3) the effect of strong electron exchange interactions. This last effect precludes the direct use of quantum mechanical perturbation theory to obtain the rate constant expressions. For our model system we obtain general rate expressions valid for adiabatic to nonadiabatic transfers. This follows from the generality of the Yamamoto theory. We find particularly that the effects of reactant transport and internal vibronic contributions can be cast into a virial form for the rate constant. Moreover, the activation energy, in the Arrhenius sense, contains new terms relating specifically to the new effects we consider, namely, transport and vibronic effects.
    Type of Medium: Online Resource
    ISSN: 0021-9606 , 1089-7690
    Language: English
    Publisher: AIP Publishing
    Publication Date: 1973
    detail.hit.zdb_id: 3113-6
    detail.hit.zdb_id: 1473050-9
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  • 9
    Online Resource
    Online Resource
    AIP Publishing ; 1966
    In:  The Journal of Chemical Physics Vol. 45, No. 2 ( 1966-07-15), p. 761-762
    In: The Journal of Chemical Physics, AIP Publishing, Vol. 45, No. 2 ( 1966-07-15), p. 761-762
    Type of Medium: Online Resource
    ISSN: 0021-9606 , 1089-7690
    Language: English
    Publisher: AIP Publishing
    Publication Date: 1966
    detail.hit.zdb_id: 3113-6
    detail.hit.zdb_id: 1473050-9
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  • 10
    Online Resource
    Online Resource
    AIP Publishing ; 2000
    In:  Journal of Applied Physics Vol. 88, No. 3 ( 2000-08-01), p. 1494-1497
    In: Journal of Applied Physics, AIP Publishing, Vol. 88, No. 3 ( 2000-08-01), p. 1494-1497
    Abstract: Band-to-band Auger recombination in crystalline silicon is investigated by means of quasi-steady-state photoconductance measurements under intermediate- and high-injection conditions. The measurements reveal that the correlation of the charge carriers via Coulombic interaction has to be taken into account to accurately model the observed injection level and doping concentration dependence of the Auger recombination lifetime. A semi-empirical Coulomb-enhanced Auger recombination model is applied in order to simulate the experimental results theoretically.
    Type of Medium: Online Resource
    ISSN: 0021-8979 , 1089-7550
    Language: English
    Publisher: AIP Publishing
    Publication Date: 2000
    detail.hit.zdb_id: 220641-9
    detail.hit.zdb_id: 3112-4
    detail.hit.zdb_id: 1476463-5
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