title: Dynamite extended: two new services to simplify protein dynamic analysis.
abstract: We describe two additional services now available as part of the previously described Dynamite protein dynamics web service. Dynatraj provides principle component analysis and visualization of modes of motion for a user's own ensemble of protein structures, e.g. from Molecular Dynamics, NMR or experimental ensembles. Dynapocket predicts probable configurations of a protein pocket from a single known structure. Both have been provided in response to requests from users for additional functionality from the Dynamite server. Like Dynamite, both are available free of charge to all users.
authors.affiliation: Laboratory of Molecular Biophysics, Department of Biochemistry, University of Oxford Oxford OX1 3QU, UK.
authors.forename: C Paul
authors.initials: CP
authors.lastname: Barrett
authors.forename: Martin E M
authors.initials: ME
authors.lastname: Noble
mesh_terms: D000465:Algorithms; D001665:Binding Sites; D003198:Computer Simulation; D020407:Internet; D008956:Models, Chemical; D008958:Models, Molecular; D011485:Protein Binding; D011487:Protein Conformation; D017510:Protein Folding; D011506:Proteins / Q000032:analysis* / Q000737:chemistry*; D020539:Sequence Analysis, Protein / Q000379:methods*; D012984:Software; D014584:User-Computer Interface
chemical_list: D011506:Proteins