N or C-terminal insertions or deletions were allowed as long as they were shorter than five amino acids. This was done in order of not having to model any loop ab-initio or introduce any change in the existing linear backbone. Both proteins are solved by X ray, with a resolution better than 2.5 A, and an R-factor better than 0.320. Table 1 lists the pairs of proteins used, as well as some vital statistics. Root mean square atomic displacement between equivalenced atoms in the two molecules.
Root mean square atomic misplacement between the model and the real structure.
1cdp 1.60 0.16 0.702 62. Conclusions Most modelling procedures use the backbone of the template as the backbone of the model, and add the sidechains onto this backbone. The RMSe of the backbone will therefore be the same as the RMSd of the model and template backbone. We call this the starting error. Obviously under normal conditions the final all atom RMSe will always be bigger than this starting error.