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To attain the best fitting structure and the correct number of factors, the following criteria were used: eigenvalues > 1.0 and factor loadings > 0.35.
Criteria used to determine the best fitting structure and correct numbers of factors were: 1) an eigenvalue >1; 2) screen plot characteristics; 3) percentage of total variance explained by each factor; 4) an item-factor loading cut-off of 0.40; and 5) a communality score cut-off of 0.50.
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This residue-level sieving is also accompanied by iterative elimination of the poorly fitting structures from the input ensemble.
After simultaneous IQP fitting, the lowest RMS error for the fitted structure is 8.6 Å with respect to the crystal structure, and only slightly larger than our results observed for simulated maps.
Tide fits structure design for large scale P2P systems in heterogeneous environments.
Personally, I loved the more delicate, fitted structure above the waist followed by a long, dramatic silhouette a la Badgley Mischka.
For example, the best fitted structure of the four-component assembly 2BO9 has an RMS error of 1.7 Å.
Contacts between the E1 and E2 glycoproteins were determined (Materials and Methods) for the T = 4 fitted structure and compared with the improved, independently fitted, domain structure (Table 6).
Once f has been determined, the full embedding space is warped and the atomic positions of the fitted structure are mapped accordingly.
The fitted structure is the stigmatellin-bound form, but the Rieske domains also protruded from the map when the uninhibited form was used instead (not shown).
Additionally, the orientation of cytochrome c in the cryo-EM fitted structure of apoptosome [PDB: 3J2T] [ 25] was also treated as a model under investigation.
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