Sentence examples for main chain models from inspiring English sources

The number of main chain models to be generated was specified in the program.

Nonetheless, from the selected 51,366 particles we calculated a 4.2 Å map, which was of sufficient quality to build a reliable main-chain model, although the density for many side chains was less clear.

ModRefiner [ 39] at http://zhanglab.ccmb.med.umich.edu/ModRefiner/ is an algorithm for atomic-level, high-resolution protein structure refinement, which can start from either C-alpha trace, main-chain model or full-atomic model.

Getting the hydrogen bonding network right, as we do during main chain and side chain modeling, is also important for drug docking and a prerequisite for simulation stability in molecular dynamics calculations.

The root mean square deviations (RMSD) between the main chain atoms of the models and templates were calculated by structural superimposition.

The main chains of these models were made congruent by comparative modeling using the I-TASSER models as templates.

Model refinement was performed on the main chain of the two atom models using phenix.real_space_refine.real_space_refine

Only the main chain atoms of the model were used for structure solution.

The measure of model accuracy is the local backbone RMSD, calculated by superimposing the stems of the loops (as described before) and then calculating the RMSD of the H3 loop main chain atoms between the model loop and the native conformation.

The new model was evaluated by studying the phase behaviors of semi-flexible main chain LCPs through simulation.

There was no difference in the number and organization of secondary structural elements and no significant main chain deviation among the 10 models developed.