Hi Gloria, You can paste your protein sequence directly into the text search box of the RCSB PDB website (http://www.rcsb.org), and choose one of the sequence search autosuggestions.
You can also to try the PSI-BAST search to find more distantly related homologs: click on the Sequence option in the top search bar and then choose "options". On the advanced search page choose "PSI-BLAST" as the search tool. Peter Rose RCSB PDB From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Gloria Borgstahl Sent: Thursday, August 22, 2013 8:15 AM To: CCP4BB@JISCMAIL.AC.UK Subject: [ccp4bb] structural search for homologs in pdb? 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
