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  • 1990-1994  (2)
  • Computational Chemistry and Molecular Modeling  (2)
Materialart
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  • 1
    Digitale Medien
    Digitale Medien
    New York, NY : Wiley-Blackwell
    International Journal of Quantum Chemistry 44 (1992), S. 291-299 
    ISSN: 0020-7608
    Schlagwort(e): Computational Chemistry and Molecular Modeling ; Atomic, Molecular and Optical Physics
    Quelle: Wiley InterScience Backfile Collection 1832-2000
    Thema: Chemie und Pharmazie
    Notizen: A series of computer simulations has been carried out on bovine pancreatic trypsin inhibitor using various models to mimic the effects of explicit bulk solvent on the structure of the protein. The solvent properties included are the polarization of the solute by the polar bulk solvent and the restraining effect on the motional freedom of the solute due to frictional drag at the solvent-protein surface interface. The former has been included by using a distance-dependent dielectric permittivity to screen the electrostatic interactions, whereas the latter is simulated by adding a limited number of solvent molecules near the protein surface. To achieve the proper mobility of the water molecules, their motion was restrained by adding a harmonic restraining force. It was found that a very small force constant was sufficient to model the static and dynamical behavior of the fully solvated solute, but that it was necessary to include enough explicit waters to occupy the first solvation shell. © 1992 John Wiley & Sons, Inc.
    Zusätzliches Material: 2 Ill.
    Materialart: Digitale Medien
    Bibliothek Standort Signatur Band/Heft/Jahr Verfügbarkeit
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  • 2
    Digitale Medien
    Digitale Medien
    New York, NY [u.a.] : Wiley-Blackwell
    Journal of Computational Chemistry 12 (1991), S. 811-828 
    ISSN: 0192-8651
    Schlagwort(e): Computational Chemistry and Molecular Modeling ; Biochemistry
    Quelle: Wiley InterScience Backfile Collection 1832-2000
    Thema: Chemie und Pharmazie , Informatik
    Notizen: A new program has been developed for the implementation of the self-consistent nonorthogonal group function (NOGF) approximation for the calculation of wavefunctions between interacting systems. The NOGF approach is based on the reformulation of a single-determinental, closed shell wavefunction into an antisymmetrized product of nonorthogonal group functions, each of which is a single determinant of doubly occupied orbitals. The group product form of the wavefunction combined with the relaxation of the orthogonality constraints and the structure of the orbital equations allows each group's orbitals to be expanded in a local basis set, and makes it possible to modify the orbital expansions or iterative process to simplify the computation. Three models for approximating the full single-determinental wavefunction are tested: (1) different quality basis sets for orbitals belonging to different groups, (2) variation of the types of intergroup interactions included in the wavefunction, and (3) the use of frozen orbitals which have been predetermined in a subsystem and are subsequently transferred to the system of interest. These approximations are applied to the calculation of protonation energies of formate, ammonia, imidazole, and guanidine with part of the first hydration shell being represented by two water molecules hydrogen bonded to each species. The results from different basis sets are compared. Then interaction potentials between the acid and ammonia are calculated for both neutral and charged forms, again with inclusion of part of the first hydration shell. The results show that these techniques can yield reliable wavefunctions of the same quality as obtained with the standard supermolecule approach. The effect of the basis set superposition error in the NOGF approach is briefly considered, and the reduction in computing effort resulting from the three models is discussed.
    Zusätzliches Material: 11 Ill.
    Materialart: Digitale Medien
    Bibliothek Standort Signatur Band/Heft/Jahr Verfügbarkeit
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