> 3Motif

3MotifTool Content

http://motif.stanford.edu/distributions/3motif/

Protein > 3-D Structure Retrieval/Viewing
Protein > Domains and Motifs

3Motif is a tool for visualizing protein sequence motifs and their properties in 3 dimensions from PDB structure files.

This content is being maintained by brutlag.

NAR Web Server Issue 2003
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tagsamino acid motifs amino acid sequence amino acids animals conserved sequence database management systems molecular models molecular sequence data protein conformation protein databases protein sequence analysis proteins sequence alignment three-dimensional imaging

Documentation

To install the 3motif package, perform the following steps:

1. From this web page, download '3motif-2.0.tar.gz'

2. In a convenient location, uncompress and unpack the software by
typing:
gunzip 3motif-2.0.tar.gz
tar -xvf 3motif-2.0.tar

This creates a directory ./3motif-2.0 containing the distribution
files.

3. Change directories into the 3motif-2.0 directory that was just
created.

4. Open and carefully read the README file there for instructions.

** NOTE: You will probably need to download the pdb-xx-20xx.tar file
as well - the README file will give you the necessary details.

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To cite this work, use the following reference:

Steven P. Bennett, Craig G. Nevill-Manning, and Douglas L. Brutlag,
"3motif: Visualizing Conserved Protein Sequence Motifs in the Protein Structure Database."
Bioinformatics, Vol. 19 no. 4 2003, 541-542.

Please send questions and comments to one of the following people:
Steven P. Bennett (encino@stanford.edu) if before 12/2002
Douglas L. Brutlag (http://cmgm.stanford.edu/~brutlag) if after 01/2003

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