Main Page

(Difference between revisions)

Revision as of 22:20, 22 May 2008

MolMovDB and Associated Tools

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 WIKI
Collection of Sets of Motions

Morph: 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 WIKI
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

Macromolecular Geometry: Useful programs for structural analysis available for download
Membrane protein motions: A web page for M Gerstein & C Chothia (1999), "Proteins in Motion"
Large scale protein motions: Gerstein and Echols (2004)
Protein-protein binding motions: Conformational changes associated with protein-protein interactions; Goh, Milburn and Gerstein (2004)

@@ Line 7: / Line 7: @@
 * The [http://www.molmovdb.org/movies/gallery.html highlights] page showcases some of our best movies
 * [http://www2.molmovdb.org/help/ Help page] '''WIKI'''
+* [http://molmovdb.org/sets Collection of Sets of Motions]
 == Servers ==