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  • 1
    Electronic Resource
    Electronic Resource
    Springer
    Theoretical chemistry accounts 101 (1999), S. 143-150 
    ISSN: 1432-2234
    Keywords: Key words: Molecular mechanics interaction energy ; π␣complexes ; T-shaped adducts ; Stacking interactions␣ ; Molecular mechanics/quantum mechanics␣comparison ; Indole⋯5-methylimidazole
    Source: Springer Online Journal Archives 1860-2000
    Topics: Chemistry and Pharmacology
    Notes: Abstract. Several histidine-tryptophan complexes (either stacked or T-shaped), derived from the crystal structures available in the Brookhaven Protein Data Bank, have been examined with molecular mechanics (MM), using the Tripos force field with Gasteiger-Hückel charges, whose trend was found to be analogous to the AMBER or CHARMM ones. The MM results were compared to the ab initio MP2 results, with and without counterpoise (CP) correction, previously obtained using extended basis sets on 5-methylimidazole and indole as model systems. MM seems to underestimate the interaction energy between the two monomers when compared to the uncorrected MP2 results, while the agreement is much better after including the CP correction at the MP2 level in all cases. MM was thus used to qualitatively analyse the dependence of the stacking energy on the ring rotation at a variable distance and ring centroid displacement for these systems, while keeping the rings in parallel planes. An analogous study was carried out for a T-shaped adduct.
    Type of Medium: Electronic Resource
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  • 2
    Electronic Resource
    Electronic Resource
    Springer
    Molecular engineering 2 (1992), S. 137-152 
    ISSN: 1572-8951
    Keywords: Counterpoise corrections ; energy decomposition ; SCF/MP2 ; BSSE ; diffuse functions ; ammonium-water interaction
    Source: Springer Online Journal Archives 1860-2000
    Topics: Chemistry and Pharmacology
    Notes: Abstract A study of the effects of counterpoise (CP) corrections in polyatomic cation-water interactions is added to the systematic analysis performed in the past of the basis set superposition error (BSSE) in neutral and anionic adducts. The interaction with water of the ammonium cation and its methyl and -CHO derivatives is considered due to the need to model accurately this functional group, which is common in biological molecules. The basis sets employed are the STO-3G and MINI-1 minimal basis sets and the 3-21G, 4-31G and 6-31G** extended ones. In addition, the 6-311++G (2d,p) and 6-311++G (3d, 2p) basis sets have been used for the smallest system, at the SCF and MP2 levels, both without and with CP correction. These basis sets give an equilibrium distance slightly larger and an interaction energy less favourable than the 6-31G** basis set at the corresponding level, while the inclusion of correlation corrections produces a stronger H-bond at a shorter distance. The results confirm the previous hint of a lower incidence of BSSEs in medium size cationic systems, at a different extent for the various basis sets. While the STO-3G basis set is sharply affected by BSSEs in both the equilibrium distance and the interaction energy, the MINI-1 basis set shows a small BSSE, though its trend is not completely satisfactory because the charge transfer component has an anomalous behaviour with respect to our reference basis set. The 4-31G basis set is the only one able to hold comparison with the 6-31G**, even though the interaction energy produced is slightly overestimated. The 3-21G basis set, when corrected, almost parallels the 4-31G one in this set of compounds. The reliability of the CPED correction is checked and discussed.
    Type of Medium: Electronic Resource
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