These results demonstrate that flexible backbone methods for epitope grafting can significantly improve binding affinities over those achieved by fixed backbone methods alone.
Chatzistergos, T., Usoskin, I. G., Kovaltsov, G. A., Krivova, N. A. & Solanki, S. K. New reconstruction of the sunspot group numbers since 1739 using direct calibration and "backbone" methods.
Svalgaard, L. & Schatten, K. H. Reconstruction of the sunspot group number: the backbone method.
I've long been cautious about any model employing hypotheses of randomness in model components, particularly the backbone method of multiple linear regression, popular accounts of which may have encouraged the use of such hypotheses elsewhere.
Many of these achievements employed methodologies that sample amino acid side-chains on a fixed backbone, while methods that explicitly model backbone flexibility have so far largely focused on the design of new structures rather than functions.
We used the central nervous system (CNS -specific miR124 promoter (De Rienzo et al., 2011; Shkumatava et al., 2009) and expressed shRNAs from the miR30 baCNS -specificethods) (Dong et al., 2009; De Rienzo et al., 2011; De Rienzo et al., 2012) (Fig. 7A).
We find that such a flexible backbone design method better recapitulates protein family sequence variation than sequence optimization on fixed backbones or randomly perturbed backbone ensembles for ten diverse protein structures.
Recent developments in the synthesis of polyelectrolytes are highlighted, with respect to the nature of the ionic groups, the polymer backbones, synthetic methods, and additional functionality given to the polyelectrolytes.
Thus, in our tool, an ensemble of five structures is generated using a flexible backbone modeling method, RosettaBackrub [24, 36], for both the original and the mutant kinase structures.
Eris features an all-atom force filed, a fast side-chain packing algorithm, and a backbone relaxation method for accurate protein stability predictions.
11 For the ten- and twelve-helix bundles, the measured end-to-end distances were identical to the measured contour lengths within the resolution of the bundlese thecing measured
