153 research outputs found
Electron correlation in C_(4N+2) carbon rings: aromatic vs. dimerized structures
The electronic structure of C_(4N+2) carbon rings exhibits competing
many-body effects of Huckel aromaticity, second-order Jahn-Teller and Peierls
instability at large sizes. This leads to possible ground state structures with
aromatic, bond angle or bond length alternated geometry. Highly accurate
quantum Monte Carlo results indicate the existence of a crossover between C_10
and C_14 from bond angle to bond length alternation. The aromatic isomer is
always a transition state. The driving mechanism is the second-order
Jahn-Teller effect which keeps the gap open at all sizes.Comment: Submitted for publication: 4 pages, 3 figures. Corrected figure
A novel multigrid method for electronic structure calculations
A general real-space multigrid algorithm for the self-consistent solution of
the Kohn-Sham equations appearing in the state-of-the-art electronic-structure
calculations is described. The most important part of the method is the
multigrid solver for the Schroedinger equation. Our choice is the Rayleigh
quotient multigrid method (RQMG), which applies directly to the minimization of
the Rayleigh quotient on the finest level. Very coarse correction grids can be
used, because there is no need to be able to represent the states on the coarse
levels. The RQMG method is generalized for the simultaneous solution of all the
states of the system using a penalty functional to keep the states orthogonal.
The performance of the scheme is demonstrated by applying it in a few molecular
and solid-state systems described by non-local norm-conserving
pseudopotentials.Comment: 9 pages, 3 figure
Quantum ESPRESSO: a modular and open-source software project for quantum simulations of materials
Quantum ESPRESSO is an integrated suite of computer codes for
electronic-structure calculations and materials modeling, based on
density-functional theory, plane waves, and pseudopotentials (norm-conserving,
ultrasoft, and projector-augmented wave). Quantum ESPRESSO stands for "opEn
Source Package for Research in Electronic Structure, Simulation, and
Optimization". It is freely available to researchers around the world under the
terms of the GNU General Public License. Quantum ESPRESSO builds upon
newly-restructured electronic-structure codes that have been developed and
tested by some of the original authors of novel electronic-structure algorithms
and applied in the last twenty years by some of the leading materials modeling
groups worldwide. Innovation and efficiency are still its main focus, with
special attention paid to massively-parallel architectures, and a great effort
being devoted to user friendliness. Quantum ESPRESSO is evolving towards a
distribution of independent and inter-operable codes in the spirit of an
open-source project, where researchers active in the field of
electronic-structure calculations are encouraged to participate in the project
by contributing their own codes or by implementing their own ideas into
existing codes.Comment: 36 pages, 5 figures, resubmitted to J.Phys.: Condens. Matte
CHARMM: The biomolecular simulation program
CHARMM (Chemistry at HARvard Molecular Mechanics) is a highly versatile and widely used molecular simulation program. It has been developed over the last three decades with a primary focus on molecules of biological interest, including proteins, peptides, lipids, nucleic acids, carbohydrates, and small molecule ligands, as they occur in solution, crystals, and membrane environments. For the study of such systems, the program provides a large suite of computational tools that include numerous conformational and path sampling methods, free energy estimators, molecular minimization, dynamics, and analysis techniques, and model-building capabilities. The CHARMM program is applicable to problems involving a much broader class of many-particle systems. Calculations with CHARMM can be performed using a number of different energy functions and models, from mixed quantum mechanical-molecular mechanical force fields, to all-atom classical potential energy functions with explicit solvent and various boundary conditions, to implicit solvent and membrane models. The program has been ported to numerous platforms in both serial and parallel architectures. This article provides an overview of the program as it exists today with an emphasis on developments since the publication of the original CHARMM article in 1983. © 2009 Wiley Periodicals, Inc.J Comput Chem, 2009.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/63074/1/21287_ftp.pd
Design and Implementation of Scientific Software Components to Enable Multiscale Modeling: The Effective Fragment Potential (QM/EFP) Method
The design and development of scientific software components to provide an interface to the effective fragment potential (EFP) methods are reported. Multiscale modeling of physical and chemical phenomena demands the merging of software packages developed by research groups in significantly different fields. Componentization offers an efficient way to realize new high performance scientific methods by combining the best models available in different software packages without a need for package readaptation after the initial componentization is complete. The EFP method is an efficient electronic structure theory based model potential that is suitable for predictive modeling of intermolecular interactions in large molecular systems, such as liquids, proteins, atmospheric aerosols, and nanoparticles, with an accuracy that is comparable to that of correlated ab initio methods. The developed components make the EFP functionality accessible for any scientific component-aware software package. The performance of the component is demonstrated on a protein interaction model, and its accuracy is compared with results obtained with coupled cluster methods
High on-off conductance switching ratio in optically-driven self-assembled conjugated molecular systems
A new azobenzene-thiophene molecular switch is designed, synthesized and used
to form self-assembled monolayers (SAM) on gold. An "on/off" conductance ratio
up to 7x1E3 (with an average value of 1.5x1E3) is reported. The "on"
conductance state is clearly identified to the cis isomer of the azobenzene
moiety. The high "on/off" ratio is explained in terms of photo-induced,
configuration-related, changes in the electrode-molecule interface energetics
(changes in the energy position of the molecular orbitals with respect to the
Fermi energy of electrodes) in addition to changes in the tunnel barrier length
(length of the molecules). First principles DFT calculations demonstrate a
better delocalization of the frontier orbitals, as well as a stronger
electronic coupling between the azobenzene moiety and the electrode for the cis
configuration over the trans one. Measured photoionization cross-sections for
the molecules in the SAM are close to the known values for azobenzene
derivatives in solution.Comment: 1 file with main text, figure and suppementary informatio
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