Template-based protein structure modeling using the RaptorX web server
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Cites methods from "Template-based protein structure mo..."
...Secondary structure prediction was done with RaptorX [27] and protein-protein interaction with PredictProtein [28]....
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...According to RaptorX secondary structure prediction software the arginine in position 181 is located in beta-sheet with the likelihood of 83.4% but, as determined by PredictProtein, the amino acid is not predicted to directly participate in protein-protein interactions....
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"Template-based protein structure mo..." refers background or methods in this paper
...The numbered labels indicate the location of the following screen features: (1) tabs for switching between the three-state and eight-state prediction; (2) hovering over a residue will give detailed statistics on the secondary-state distribution; (3) the status: a current running time of the job; (4) a download link for the prediction results; and (5) a color-code legend for secondary structure diagram....
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...The numbered labels indicate the location of the following screen features: (1) a drop-down menu for switching between alternative alignments; (2) the alignment between target sequence and template; (3) indication of the status: a current running time of the job; (4) a link for download of the prediction result; and (5) a legend indicating the alignment color coding....
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...The numbered labels indicate the location of the following screen features: (1) the rank of currently selected model; (2) the quality score of the model; (3) the PDB IDs for the set templates used for modeling; (4) a drop-down menu for selecting alternative structure models; (5) tabs for switching between structure prediction, function annotation and BLAST output; (6) interactive viewer displaying the currently selected model structure; (7) menu for controlling the interactive viewer; (8) alignment used for structure modeling; (9) indication of the status: a current running time of the job; (10) download links for prediction results; and (11) a user guide for the interactive structure viewer....
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