Literature DB >> 20607691

Gabedit--a graphical user interface for computational chemistry softwares.

Abdul-Rahman Allouche1.   

Abstract

Gabedit is a freeware graphical user interface, offering preprocessing and postprocessing adapted (to date) to nine computational chemistry software packages. It includes tools for editing, displaying, analyzing, converting, and animating molecular systems. A conformational search tool is implemented using a molecular mechanics or a semiempirical potential. Input files can be generated for the computational chemistry software supported by Gabedit. Some molecular properties of interest are processed directly from the output of the computational chemistry programs; others are calculated by Gabedit before display. Molecular orbitals, electron density, electrostatic potential, nuclear magnetic resonance shielding density, and any other volumetric data properties can be displayed. It can display electronic circular dichroism, UV-visible, infrared, and Raman-computed spectra after a convolution. Gabedit can generate a Povray file for geometry, surfaces, contours, and color-coded planes. Output can be exported to a selection of popular image and vector graphics file formats; the program can also generate a series of pictures for animation. Quantum mechanical electrostatic potentials can be calculated using the partial charges on atoms, or by solving the Poisson equation using the multigrid method. The atoms in molecule charges can also be calculated. Gabedit is platform independent. The code is distributed under free open source X11 style license and is available at http://gabedit.sourceforge.net/.

Entities:  

Year:  2011        PMID: 20607691     DOI: 10.1002/jcc.21600

Source DB:  PubMed          Journal:  J Comput Chem        ISSN: 0192-8651            Impact factor:   3.376


  136 in total

1.  A novel relationship between the radical-scavenging activity of flavonoids and enthalpy of formation revealed with Hartree-Fock computations and thermochemical deduction.

Authors:  Ameha Seyoum Woldu; Joachim Mai
Journal:  Redox Rep       Date:  2012       Impact factor: 4.412

2.  Electronic structure, rovibrational, and dipole moment calculations for the AsCl molecule.

Authors:  Khaled A Mourad; Saleh N Abdulal; Mahmoud Korek
Journal:  J Mol Model       Date:  2016-01-27       Impact factor: 1.810

3.  Induced chirality in fisetin upon binding to serum albumin: experimental circular dichroism and TDDFT calculations.

Authors:  Iulia Matei; Sorana Ionescu; Mihaela Hillebrand
Journal:  J Mol Model       Date:  2012-05-15       Impact factor: 1.810

4.  Computational nanochemistry study of the molecular structure and properties of ethambutol.

Authors:  Guillermo Salgado-Morán; Samuel Ruiz-Nieto; Lorena Gerli-Candia; Norma Flores-Holguín; Alejandra Favila-Pérez; Daniel Glossman-Mitnik
Journal:  J Mol Model       Date:  2013-05-26       Impact factor: 1.810

Review 5.  Open source molecular modeling.

Authors:  Somayeh Pirhadi; Jocelyn Sunseri; David Ryan Koes
Journal:  J Mol Graph Model       Date:  2016-07-30       Impact factor: 2.518

6.  Density functional theory studies of the extent of hole delocalization in one-electron oxidized adenine and guanine base stacks.

Authors:  Anil Kumar; Michael D Sevilla
Journal:  J Phys Chem B       Date:  2011-03-21       Impact factor: 2.991

7.  Localization and anharmonicity of the vibrational modes for GC Watson-Crick and Hoogsteen base pairs.

Authors:  Attila Bende; Diana Bogdan; Cristina M Muntean; Cristian Morari
Journal:  J Mol Model       Date:  2011-03-04       Impact factor: 1.810

8.  Understanding weakly coordinating anions: tetrakis(pentafluorophenyl)borate paired with inorganic and organic cations.

Authors:  Nadezhda A Andreeva; Vitaly V Chaban
Journal:  J Mol Model       Date:  2017-02-20       Impact factor: 1.810

9.  Solvation of the fluorine containing anions and their lithium salts in propylene carbonate and dimethoxyethane.

Authors:  Vitaly Chaban
Journal:  J Mol Model       Date:  2015-06-13       Impact factor: 1.810

10.  Amine vs. carboxylic acid protonation in ortho-, meta-, and para-aminobenzoic acid: An IRMPD spectroscopy study.

Authors:  Adam P Cismesia; Georgina R Nicholls; Nicolas C Polfer
Journal:  J Mol Spectrosc       Date:  2016-11-01       Impact factor: 1.507

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