The results of a geometry optimization on the 1226 atom Kringle 1 of plasminogen are presented. The energy and gradients were calculated using a linearscaling PM3 semiempirical method with a conjugate gradient density matrix search replacing the diagonalization step. The geometry was optimized with
Geometry optimization of polymers by the elongation method
โ Scribed by Masaki Mitani; Yuriko Aoki; Akira Imamura
- Publisher
- John Wiley and Sons
- Year
- 1997
- Tongue
- English
- Weight
- 322 KB
- Volume
- 64
- Category
- Article
- ISSN
- 0020-7608
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โฆ Synopsis
Theoretical studies on the electronic and the geometrical structures for various molecules by the molecular orbital or the density functional theory have recently been developed and applied widely under the progress of computer technologies. At present, it is possible to carry out a theoretical investigation on electronic properties for small molecules at the HartreeแFock and the post-HartreeแFock levels by the improvement of advanced program packages. However, it is difficult to perform the theoretical calculations on electronic structures for large polymers with the aperiodic sequence of molecular segments, because the theoretical treatment of random systems has not yet been established. We recently proposed the elongation method as a useful theoretical approach to obtain the electronic states of any polymers without the periodic geometry of molecular fragments. In the previous works, the reliability of our treatment has been shown by the application to many polymers under single-point calculations with fixed molecular geometry. Thus, as the next step of our study, an attempt for the geometry optimization of large polymers by the elongation method was made in this work. As the first samples of geometry optimization, the periodic polymers of polyethylene, polyacetylene, and polyglycine were examined. Also, as the second samples, the locally aperiodic polymers of polyacetylene with local defects of positively and negatively charged solitons were tested. Total energies, optimized geometries, and electron densities were checked by those obtained from the conventional molecular orbital method.
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The geometries of three different sets of transition metal compounds are optimized with the semiempirical PM3 (tm) method. The systems under test are: (i) products of cyclometallation, like [Pd{C 6 H 4 [CH(Me)NH 2 ]}Br(PPh 3 )], (ii) molecular dihydrogen complexes, like [W(CO) 3 (H 2 )(PR 3 ) 2 ], a
A new implementation of analytical gradients for the polarizable continuum model is presented, which allows Hartree-Fock and density functional calculations taking into account both electrostatic and nonelectrostatic contributions to energies and gradients for closed and open shell systems. Simplifi
The elongation behavior of various polymer melts extruded from the single screw extruder has been studied. Low-density polyethylene, high-density polyethylene, polypropylene, and their short glass-fiber (GF)-filled composites were used. It was found that the spinning stability was good but the drawa