WPDB v2.0 Available for Beta Testing

[Philip Bourne]

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                            BETA TESTERS SOUGHT
             WPDB - PC-based Macromolecular Structure Interrogation
                        For Research and Education
                                Version 2.0 
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WPDB (the Protein Data Bank through Microsoft Windows) is a PC based
software package comprising a compressed version of all or parts of the 
PDB and a set of tools to query features of a single structure or perform a 
comparative analysis on multiple structures with emphasis on sequence
alignment and structure superposition. Version 2.0 is significantly
enhanced over v1.0 and beta testers are sought. Capabilities of the 
software are illustrated by several examples described in the WPDB home page: 
       http://www.sdsc.edu/CCMS/Packages/wpdb.html


If, after reviewing the WWW WPDB page, you are interested in beta testing this 
software please send mail to bourne at sdsc.edu. 

WPDB requires a 486/33 with Microsoft Windows installed and preferably a 
color monitor. Two test databases are available: (i) a random selection
of 100 structures; (ii) the list of "unique" structures defined by Hobolm and 
Sander. Beta testers will be asked to complete a short evaluation form.

WPDB was developed by Ilya N. Shindyalov (shindyal at cuhhca.hhmi.columbia.edu)
and Philip E. Bourne (bourne at sdsc.edu) and is being supported by the 
San Diego Supercomputer Center (SDSC).
                            
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                             Typical Uses
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        o Analysis of protein-protein and protein-ligand interactions.
        o Analysis of internal interactions in proteins to reveal
          different folds (e.g. helix-helix hydrophobic stacking).
        o Analysis of sequence-structure correlations using sequence
          search and static property profiles.
        o As above with sequence homology and structure superposition.
        o Analysis of thermal motion profiles.
	o Secondary structure calculation according to the method of 
	  Kabsch and Sander. 
	o Analysis of exposure based on the method of Lee and Richards.
        o Locate structures based on string searches of combinations
          of PDB record types and/or sequence patterns.
        o Basic molecular rendering.

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