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* [http://helix.gersteinlab.org/ Analysis of helix interactions]
* [http://helix.gersteinlab.org/ Analysis of helix interactions]
* [http://molmovdb.org/nma/ Normal mode analysis]: This tool allows the user to upload a query structure (or choose it from the motions database), calculate its lowest frequency Normal Mode, build the movie of this vibration and compare it with the pre-calculated flexibility regions based on either supplied B-factors or multiple structural alignment for the corresponding fold family (for single-domain queries)
* [http://molmovdb.org/nma/ Normal mode analysis]: This tool allows the user to upload a query structure (or choose it from the motions database), calculate its lowest frequency Normal Mode, build the movie of this vibration and compare it with the pre-calculated flexibility regions based on either supplied B-factors or multiple structural alignment for the corresponding fold family (for single-domain queries)
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* [http://molmovdb.org/cgi-bin/submit-flexoracle.cgi Hinge prediction]: The new HingeMaster server predicts hinge locations in single protein structures. The algorithm combines FlexOracle, TLSMD, StoneHinge and NSHP hinge predictors for maximum accuracy
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* [[Hinge Analysis]]
== Other Useful Resources ==
== Other Useful Resources ==

Revision as of 12:51, 27 June 2008

MolMovDB and Associated Tools

Contents

Databases

  • Protein motions: Manually curated descriptions of conformational changes in hundreds of distinct proteins, with references and movie links
  • Movies: Thousands of morphs of transitions between PDB files, viewable through a Java applet or as MPEG or GIF movies. Most of these are submissions to the Morph Server by database users
  • Search database
  • The highlights page showcases some of our best movies
  • Help page
  • Collection of Sets of Motions

Servers

  • Morph Server: A web-based tool for generating and animating chemically realistic interpolations between two conformations. Now supports RNA, DNA, and multi-subunit complexes
  • Morph Server FAQ
  • Analysis of helix interactions
  • Normal mode analysis: This tool allows the user to upload a query structure (or choose it from the motions database), calculate its lowest frequency Normal Mode, build the movie of this vibration and compare it with the pre-calculated flexibility regions based on either supplied B-factors or multiple structural alignment for the corresponding fold family (for single-domain queries)
  • Hinge Analysis

Other Useful Resources

Publications

Personal tools