P212121

PDBeMotif is a good way to search for sites, motifs and ligand interactions with a given PDB file.


Use the ‘Upload PDB file’ to search the protein data bank for structures.


You can then upload your PDB into the server for searching.

Note: the structure that you are searching with does not need to be in protein data bank.

In addition, you can use SPASM structural motif hunter– either download or run it from a server. SPASM uses a max of 500 atoms so you will probably need to edit your PDB file for the specific motif that you are searching with. If you want more information about SPASM then click here.

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2 Awesome Insights so far | Have Your Say!

1. 

   Stephen Curry
   July 16th, 2009 at 2:48 AM #

   Thanks for flagging that up – looks useful and I didn’t know of it before!

2. 

   Sean
   July 16th, 2009 at 7:34 PM #

   Glad to hear!