InterMap3D: predicting and visualizing co-evolving protein residues.
CONCLUSIONS
InterMap3D predicts co-evolving protein residues and plots them on the 3D protein structure. Starting with a single protein sequence, InterMap3D automatically finds a set of homologous sequences, generates an alignment and fetches the most similar 3D structure from the Protein Data Bank (PDB). It can also accept a user-generated alignment. Based on the alignment, co-evolving residues are then predicted using three different methods: Row and Column Weighing of Mutual Information, Mutual Information/Entropy and Dependency. Finally, InterMap3D generates high-quality images of the protein with the predicted co-evolving residues highlighted.


BACKGROUND
http://www.cbs.dtu.dk/services/InterMap3D/.
Gouveia-Oliveira
Rodrigo
R
Center for Biological Sequence Analysis, Technical University of Denmark, DK-2800 Lyngby, Denmark. gorm@cbs.dtu.dk
Roque
Francisco S
FS
Wernersson
Rasmus
R
Sicheritz-Ponten
Thomas
T
Sackett
Peter W
PW
Mølgaard
Anne
A
Pedersen
Anders G
AG
D019295:Computational Biology / Q000379:methods*; D030562:Databases, Protein; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry*; D016415:Sequence Alignment / Q000379:methods; D020539:Sequence Analysis, Protein / Q000379:methods; D012984:Software
D011506:Proteins