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* [http://helix.gersteinlab.org/ Analysis of helix interactions]: Tools for interface analysis of interacting helices and a database of membrane proteins.
* [http://helix.gersteinlab.org/ Analysis of helix interactions]: Tools for interface analysis of interacting helices and a database of membrane proteins.
* [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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* [[Hinge Analysis]] : The 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]] : HingeMaster is a resource for predicting the location of hinges in a protein structure.
* [[Conformation Explorer]] : Resource for predicting the holo structure of a protein, and the protein motion, by providing a trajectory of PDB structures connecting the user input structure to the predicted holo structure.
* [[Conformation Explorer]] : Resource for predicting the holo structure of a protein, and the protein motion, by providing a trajectory of PDB structures connecting the user input structure to the predicted holo structure.

Revision as of 15:06, 2 July 2008

MolMovDB and Associated Tools

Contents

Databases

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: Tools for interface analysis of interacting helices and a database of membrane proteins.
  • 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 : HingeMaster is a resource for predicting the location of hinges in a protein structure.
  • Conformation Explorer : Resource for predicting the holo structure of a protein, and the protein motion, by providing a trajectory of PDB structures connecting the user input structure to the predicted holo structure.

Other Useful Resources

Publications

Personal tools