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DFTMD studies of β-cellobiose: conformational preference using implicit solvent

DFTMD studies of β-cellobiose: conformational preference using implicit solvent,10.1016/j.carres.2011.01.004,Carbohydrate Research,F. A. Momany,U. Sch

DFTMD studies of β-cellobiose: conformational preference using implicit solvent   (Citations: 1)
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Previous DFT in vacuo studies on the conformational preferences for cellobiose showed that upon optimization the φH-anti conformations were of lower energy than the syn forms. Upon optimization using an implicit solvation method, COSMO, the syn or observed form was still not predicted to be of lower energy than the φH-anti form, even though optimization after addition of several explicit water molecules did show a relative energy difference favoring the syn form. In order to examine the predictive ability of COSMO on this carbohydrate, constant energy dynamics, DFTMD, simulations were carried out on low energy syn and φH-anti conformations with and without COSMO included during the dynamics. The resulting analysis confirmed that when COSMO is included in the dynamics, the syn conformations become energetically favored over the φH-anti forms suggesting that both solvent and entropy play roles in dictating the solution conformation of cellobiose. Analysis of the dynamic runs includes distributions of selected dihedral angles versus time, conformational transitions, and populations of some quasi-planar, boat, skew forms during the simulations.
Journal: Carbohydrate Research - CARBOHYD RES , vol. 346, no. 5, pp. 619-630, 2011
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    • ...However, recent DFTMD studies on cellobiose (Momany and Schnupf 2011) including the implicit solvent method, COSMO, showed that after 5 ps of dynamics, the syn form becomes lower in average free energy than the /H‐anti form, suggesting that both solvent and entropy play a role in the solution structure of cellobiose...

    U. Schnupfet al. Rapidly calculated DFT relaxed iso-potential ϕ/ψ maps: β-cellobiose

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