User:Wayne Decatur/Homology Modeling: Difference between revisions

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**3D Structure
**3D Structure
*** [http://iimcb.genesilico.pl/modernaserver/ ModeRNA server] is an online tool for RNA 3D structure modeling by the comparative approach, based on a template RNA structure and a user-defined target-template sequence alignment. Related to this is [http://iimcb.genesilico.pl/moderna/ ModeRNA ModeRNA], which is a program for comparative modeling of RNA 3D structures. It requires a pairwise sequence alignment and a structural template to generate a 3D structural model of the target RNA sequence and allows for nucleotide modifications. See the companion [http://bioinformatics.oxfordjournals.org/content/27/17/2441.short?rss=1 article] for the server.
*** [http://iimcb.genesilico.pl/modernaserver/ ModeRNA server] is an online tool for RNA 3D structure modeling by the comparative approach, based on a template RNA structure and a user-defined target-template sequence alignment. Related to this is [http://iimcb.genesilico.pl/moderna/ ModeRNA ModeRNA], which is a program for comparative modeling of RNA 3D structures. It requires a pairwise sequence alignment and a structural template to generate a 3D structural model of the target RNA sequence and allows for nucleotide modifications. See the companion [http://bioinformatics.oxfordjournals.org/content/27/17/2441.short?rss=1 article] for the server.
*RNA-protein modeling
*Nucleic Acid-protein modeling
**The [http://iimcb.genesilico.pl/index.php/software.html software page at the Bujnicki Laboratory website] hosts software for determining two medium-resolution, knowledge-based potentials for scoring protein-RNA models obtained by docking. See the companion [http://www.biomedcentral.com/1471-2105/12/348 article].
**The [http://iimcb.genesilico.pl/index.php/software.html software page at the Bujnicki Laboratory website] hosts software for determining two medium-resolution, knowledge-based potentials for scoring protein-RNA models obtained by docking. See the companion [http://www.biomedcentral.com/1471-2105/12/348 article].
**  [http://haddock.chem.uu.nl/ The HADDOCK web server] is web server for data-driven biomolecular docking for modeling of biomolecular complexes.




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