C-Labeled Idohexopyranosyl Rings: Effects of Methyl Glycosidation and C6 Oxidation on Ring Conformational Equilibria.

An ensemble of J, J, and J values was measured in aqueous solutions of methyl α- and β-d-idohexopyranosides containing selective C-enrichment at various carbons. By comparing these J-couplings to those reported previously in the α- and β-d-idohexopyranoses, methyl glycosidation was found to affect ring conformational equilibria, with the percentages of C forms based on J analysis as follows: α-d-idopyranose, ∼18%; methyl α-d-idopyranoside, ∼42%; methyl β-d-idopyranoside, ∼74%; β-d-idopyranose, 82%. J and J values were analyzed with assistance from theoretical values obtained from density functional theory (DFT) calculations.

Dependence of pyranose ring puckering on anomeric configuration: methyl idopyranosides.

In the aldohexopyranose idose, the unique presence of three axial ring hydroxyl groups causes considerable conformational flexibility, rendering it challenging to study experimentally and an excellent model for rationalizing the relationship between puckering and anomeric configuration. Puckering in methyl α- and β-L-idopyranosides was predicted from kinetically rigorous 10 μs simulations using GLYCAM11 and three explicit water models (TIP3P, TIP4P, and TIP4P-EW). In each case, computed pyranose ring three-bond (vicinal) (1)H-(1)H spin couplings ((3)J(H,H)) trended with NMR measurements.

13C-13C NMR spin-spin coupling constants in saccharides: structural correlations involving all carbons in aldohexopyranosyl rings.

13C-13C Spin-spin coupling constants (JCC) have been measured in a group of aldohexopyranoses and methyl aldopyranosides singly labeled with 13C at different sites to confirm and extend prior correlations between JCC magnitude and sign and saccharide structure. Structural correlations for 2JC1,C3, 2JC2,C4, 2JC4,C6, and 2JC1,C5 have been confirmed using density functional theory calculations to test empirical predictions. These geminal couplings depend highly on the orientation of C-O bonds appended to the terminal coupled carbons, but new evidence suggests that 2JCCC values are also affected by intervening carbon structure and C-O bond rotation.

Dynamic characterization of a DNA repair enzyme: NMR studies of [methyl-13C]methionine-labeled DNA polymerase beta.

Crystallographic characterization of DNA polymerase beta (pol beta) has suggested that multiple-domain and subdomain motions occur during substrate binding and catalysis. NMR studies of [methyl-(13)C]methionine-labeled pol beta were conducted to characterize the structural and dynamic response to ligand binding. The enzyme contains seven methionine residues, one of which is at the amino terminus and is partially removed by the expression system.