Words similar to rmsd

Example sentences for: rmsd

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In the ab initio category, as with comparative modelling, the first CASP experiments did not live up to the results previously published in the literature [ 16 19 ] . It was not until CASP3 (the first time where we took part in this category) that the first consistent positive results were seen: several groups were able to predict the correct topologies for small proteins, or large fragments of a protein (~60-80 residues to about 6.0 Å C α RMSD relative to the experimental conformation) [ 22 25 ] .
, the segmental RMSD's) between APE1 and representatives of the distantly related DNase 1 and IPP families are comparable to those found between members of the APE family (Figure 4and Table 1& 2).
We produced nine models with accuracies ranging from 4.0 to 6.0 Å C α RMSD for 60-100 residue proteins (or large fragments of a protein).
It is normally 7 Å RMSD from the active site and is in an open conformation in the native state [ 22 23 ] . The protease undergoes significant structural changes on binding to an inhibitor.
MD simulation has been used to study the movement of the flap region of HIV-1 protease with a ligand [ 25 26 27 28 29 30 ] . The flaps initially opened to an all-atom RMSD of 25 Å within 200 ps and became completely open at the end of a 10 ns simulation.