화학공학소재연구정보센터
Journal of Physical Chemistry B, Vol.115, No.21, 7109-7121, 2011
Molecular Conformations in the Pentasaccharide LNF-1 Derived from NMR Spectroscopy and Molecular Dynamics Simulations
The conformational dynamics of the human milk oligosaccharide lacto-N-fucopentaose (LNF-1), alpha-L-Fucp-(1 -> 2)-beta-D-Galp-(1 -> 3)-beta-D-GlcpNAc-(1 -> 3)-beta-D-Galp-(1 -> 4)-D-Glcp, has been analyzed using NMR spectroscopy and molecular dynamics (MD) computer simulations. Employing the Hadamard C-13-excitation technique and the J-HMBC experiment, H-1,C-13 trans-glycosidic J coupling constants were obtained, and from one- and two-dimensional H-1,H-1 T-ROESY experiments, proton proton cross-relaxation rates were determined in isotropic D2O solution. In the lyotropic liquid-crystalline medium consisting of ditetradecyliphosphatidylcholine, dihexylphosphatidylcholine, N-cetyl-N,N,N-trimethylammonium bromide, and D2O, H-1, H-1 and one-bond H-1, C-13 residual dipolar couplings (RDCs), as well as relative sign information on homonuclear RDCs, were determined for the pentasaccharide. Molecular dynamics simulations with explicit water were carried out from which the internal isomerization relaxation time constant, tau(N), was calculated for transitions at the psi torsion angle of the beta-(1 -> 3) linkage to the lactosyl group in LNF-1. Compared to the global reorientation time, tau(M), of similar to 0.6ns determined experimentally in D2O solution, the time constant for the isomerization relaxation process, tau N((scaled)), is about one-third as large. The NMR parameters derived from the isotropic solution show very good agreement with those calculated from the MD simulations. The only notable difference occurs at the reducing end, which should be more flexible than observed by the molecular simulation, a conclusion in complete agreement with previous C-13 NMR relaxation data. A hydrogen-bond analysis of the MD simulation revealed that inter-residue hydrogen bonds on the order of similar to 30% were present across the glycosidic linkages to sugar ring oxygens. This finding highlights that intramolecular hydrogen bonds might be important in preserving well-defined structures in otherwise flexible molecules. An analysis including generalized order parameters obtained from nuclear spin relaxation experiments was performed and successfully shown to limit the conformational space accessible to the molecule when the number of experimental data are too scarce for a complete conformational analysis.