Computational Drug Discovery and Design
Wu M, Akinleye A, Zhu X (2013) Novel agents for chronic lymphocytic leukemia. J Hematol Oncol 6:36 Graf SA, Gopal AK (2016) Ide ...
Chapter 4 Phylogenetic and Other Conservation-Based Approaches to Predict Protein Functional Sites Heval Atas, Nurcan Tuncbag, a ...
on proteins can be determined by experimental approaches; how- ever, it is challenging to identify those sites for all proteins ...
the analysis. Instead, it uses predicted structural features of the sequence, combined with the evolutionary information [15]. T ...
highest similarity values will be valuable for our purpose in the result page. According to the observed similarity values: (a) ...
transferring site specific annotations will not be possible. The user is advised to continue from Subheading2.3 following a quic ...
Fig. 2UniProt Feature Viewer interface for KIT protein. The horizontal line at the top represents the protein sequence with mark ...
http://www.uniprot.org/uniprot/P10721#showFeaturesViewer). In this mode, the features are grouped under certain blocks (e.g., “D ...
nondisease, deleterious/benign). Clicking on the circles will again reveal a table displaying the description of the effect, var ...
corresponding position are: identical (i.e., fully conserved), conser- vation between different amino acid groups of highly simi ...
structure (only available if the structural information is given at the input level), for each partition with highlighted buried ...
Phylogenetics-Based Prediction of Functional Sites 61 ...
(if available) will improve the functional importance inference in most cases. SearchPQin Universal ET by first selecting “Amino ...
structure information is added). When the method is ran without structural information, the underlying algorithm that complete t ...
possible to view the results in html or xml format by clicking the corresponding boxes on the upper right-hand corner and to exp ...
We used the original graphical output of each web server to prepare Fig.3. In this figure, the first row displays the query sequ ...
size of results, while less significant hits can be discarded by unchecking their boxes, before the MSA procedure. The third opt ...
will provide a good balance between results’ quality and run times. One important point about running MSA procedure is the simil ...
Acknowledgements H.A. acknowledges TUBITAK 2211 Doctoral Fellowship Pro- gram. N.T. thanks to the TUBITAK Career Development Pro ...
specifically interacting paralogs and interpro- tein contacts by direct coupling analysis. Proc Natl Acad Sci U S A 113:12186–12 ...
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