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== Other Useful Resources ==
== Other Useful Resources ==
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* [http://geometry.molmovdb.org/ Macromolecular Geometry]: Useful programs for structural analysis available for download
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* [[Macromolecular Geometry]]: Useful programs for structural analysis available for download
* [http://bioinfo.mbb.yale.edu/geometry/membrane/ Membrane protein motions]: A web page for M Gerstein & C Chothia (1999), "Proteins in Motion"
* [http://bioinfo.mbb.yale.edu/geometry/membrane/ Membrane protein motions]: A web page for M Gerstein & C Chothia (1999), "Proteins in Motion"
* [http://www.molmovdb.org/cocb/ Large scale protein motions]: Gerstein and Echols (2004)
* [http://www.molmovdb.org/cocb/ Large scale protein motions]: Gerstein and Echols (2004)

Revision as of 22:46, 25 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 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

Other Useful Resources

Publications

Personal tools