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pubmed-article:1770382pubmed:abstractTextFour modifications to the COSMIC molecular mechanics force field are described, which greatly increase both its versatility and the accuracy of calculated conformational energies. The Hill non-bonded van der Waals potential function has been replaced by a two-parameter Morse curve and a new H-H potential, similar to that in MM3, incorporated. Hydrocarbon energies in particular are much improved. A simple iterative Hückel pi-electron molecular orbital calculation allows modelling of conjugated systems. Calculated bond lengths and rotational barriers for a series of conjugated hydrocarbons and nitrogen heterocycles are shown to be as accurate as those determined by the MM2 SCF method. Explicit hydrogen-bonding potentials for H-bond acceptor-donor atom pairs have been included to give better hydrogen bond energies and lengths. The van der Waals radii of protonic hydrogens are reduced to 0.5 A and the energy well depth is increased to 1.0 kcal mol-1. Two new general atom types, N+sp2 and O-sp3, have been introduced which allow a wide variety of charged conjugated systems to be studied. A minimum of parameterisation is required, as the new types are easily included in the Hückel scheme which automatically adjusts bond and torsional parameters according to the defined bond-order relationships.lld:pubmed
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pubmed-article:1770382pubmed:authorpubmed-author:JacksonD EDElld:pubmed
pubmed-article:1770382pubmed:authorpubmed-author:AbrahamR JRJlld:pubmed
pubmed-article:1770382pubmed:authorpubmed-author:SaundersM RMRlld:pubmed
pubmed-article:1770382pubmed:authorpubmed-author:MorrowH EHElld:pubmed
pubmed-article:1770382pubmed:authorpubmed-author:HaworthI SISlld:pubmed
pubmed-article:1770382pubmed:authorpubmed-author:VinterJ GJGlld:pubmed
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pubmed-article:1770382pubmed:pagination475-504lld:pubmed
pubmed-article:1770382pubmed:dateRevised2006-11-15lld:pubmed
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pubmed-article:1770382pubmed:year1991lld:pubmed
pubmed-article:1770382pubmed:articleTitleCOSMIC(90): an improved molecular mechanics treatment of hydrocarbons and conjugated systems.lld:pubmed
pubmed-article:1770382pubmed:affiliationDepartment of Pharmaceutical Sciences, University of Nottingham, University Park, U.K.lld:pubmed
pubmed-article:1770382pubmed:publicationTypeJournal Articlelld:pubmed
pubmed-article:1770382pubmed:publicationTypeResearch Support, Non-U.S. Gov'tlld:pubmed
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