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Bioinformatics Advance Access published online on April 26, 2005
Bioinformatics, doi:10.1093/bioinformatics/bti464
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© The Author (2005). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oupjournals.org
Received March 31, 2005
Revised April 21, 2005
Accepted April 22, 2005

Applications note

Dynamite extended: two new services to simplify protein dynamic analysis

C. Paul Barrett 1 and Martin E. M. Noble 1*

1 Laboratory of Molecular Biophysics, Department of Biochemistry, University of Oxford, Oxford, OX1 3QU, United Kingdom

* To whom correspondence should be addressed.
Martin E. M. Noble, E-mail: dynadmin{at}biop.ox.ac.uk


  Abstract

Summary: We describe two additional services now available as part of the previously described Dynamite protein dynamics web-service. Dynatraj provides Principle Component Analysis and visualisation of modes of motion for a user's own ensemble of protein structures, for example from Molecular Dynamics, NMR or experimental ensemble. Dynapocket predicts likely 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.

Availability: Free of charge http://dynamite.biop.ox.ac.uk/dynamite.


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