Sentence examples for were refined using from inspiring English sources

Model building of the CDR loops were performed by selecting template structures from the PDB database with the highest sequence identity using Model antibody Loops module and were refined using Loop Refinement module in order to minimize steric clashes and ensure correct bond lengths and angles.

After insertion of all the water molecules, the positions of all atoms were refined using conventional refinement.

All structures were refined using simulated annealing and individual anisotropic B-value refinement on protein and ligand atoms.

All structures were refined using an Rfree set identical to that used in refinement of the original 4W5O structure.

Hydrogen atoms were refined using the riding model.

A total of 369 parameters were refined using no restraints and 2 data.

The results from the Ward's method analysis were refined using the k-means non-hierarchical method.

The results were refined using 2-D forward modeling along three profiles.

Subsequently, the atom positions at the interface were refined using the software packages MOLCAD, MolArch, and SYBYL.

The component models were refined using actual operation data, resulting in precise simulation of the reference operation without leakage.

The compounds were prepared using CORINA [30] for initial coordinates and were refined using Schrödinger MacroModel [31] with the OPLS 2005 force field.