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Then the ligand binding domains were extracted from the alignments.
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For mapping of the Lis1 binding site, individual motor domains were extracted from the dimer images using a soft-edged circular mask.
Four clinically relevant domains were extracted from SCE for analysis.
Subsequently, each sequence containing the protein kinase domain was extracted, and redundant sequences were deleted.
Multifunctional protein binding domains are domains which can recruit more than one binding partner.
Time-domain and frequency-domain features were extracted.
Transcription factor (TF -binding regions were exTF -bindingng the filteregionslatory_feature_type_name" set to "TF binding site".
The domain architectures were extracted from the SwissPfam database.
In addition to commonly used GFP-like proteins, unrelated types of FPs on the base of flavin-binding domains, bilirubin-binding domains or biliverdin-binding domains were designed.
Coordinates for truncated versions of the X-ray structures, encompassing single structural complexes of the pMHC binding interfaces and the variable domains of the TR were extracted for TR paratope, pMHC epitope analyses and MSEP calculations.
Common conserved domains seen in both versions were extracted resulting in 5248 domains.
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