Instead of DALI, you might also want to try SALAMI (http://www.zbh.uni-hamburg.de/salami) for your structure searches. Tommy
On Aug 22, 2013, at 5:17 PM, Tim Gruene wrote: > -----BEGIN PGP SIGNED MESSAGE----- > Hash: SHA1 > > Dear G, > > if you only have the sequence, I suggest a BLAST search > (http://blast.ncbi.nlm.nih.gov/Blast.cgi), if you do have the > coordinates, you can use the DALI server > (http://ekhidna.biocenter.helsinki.fi/dali_server/start) > > Regards, > Tim > > On 08/22/2013 05:14 PM, Gloria Borgstahl wrote: >> We have a protein sequence that probably contains OB folds. What >> is the best way to search for the top structural homologs to this >> sequence in the pdb? G >> > > - -- > - -- > Dr Tim Gruene > Institut fuer anorganische Chemie > Tammannstr. 4 > D-37077 Goettingen > > GPG Key ID = A46BEE1A > > -----BEGIN PGP SIGNATURE----- > Version: GnuPG v1.4.14 (GNU/Linux) > Comment: Using GnuPG with Mozilla - http://enigmail.mozdev.org/ > > iD8DBQFSFiufUxlJ7aRr7hoRAiCLAKCHDkluz9I/hs437VP1eATh+OWJYwCeIwT3 > xDwgPgkom1ipFiHpBaVYhxg= > =bB6q > -----END PGP SIGNATURE-----
