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Potential templates were ranked on the basis of the maximal number of correctly aligned prolines in the 7TMD.
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Templates are ranked by their SP-scores and the ligands corresponding to the top 100 templates are selected as template ligands for ligand virtual screening.
The templates are ranked based on the difference score between the raw alignment score and the reverse alignment raw score in which the alignment is made with the reversed query sequence [36].
All templates are ranked by a confidence score described in Table 5.
The input template sequences are ranked based on the quality score from Pcons.net for the corresponding single template models.
Then, the templates which meet the requirement of Stability of Complex are ranked according to the similarity with query chain, and ligands of the top 20 templates at most will be picked out.
Our RaptorX server, which is ranked No. 2 overall, used multiple-template threading, which can generate better 3D models than single-template threading for many targets especially the easy ones.
This work employed CASP9 as a template-free or ab initio modeling [ 4] and was ranked among the middle scoring groups.
To rank the templates of a query sequence, if the maximal Sn1 is greater than or equal to the maximal Sn2, they will be ranked by Sn1, and otherwise by Sn2.
Chung is ranked 15th.
He is ranked 27th.
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