The RCSB PDB site (www.pdb.org) provides as sequence motif search as an advanced search option. For example to search for a N-terminal (His)6 tag, use the following regular expression:
^HHHHHH or HHHHHH to find any sequence with a (His)6 pattern. Click on this link to retrieve all sequences with a (His)6 pattern: http://www.pdb.org/pdb/search/smart.do?smartSearchSubtype_0=MotifQuery&motif_0=HHHHHH For more details about the sequence motif search are available at: http://www.pdb.org/pdb/staticHelp.do?p=help/advancedsearch/sequenceMotif.html Best regards, Peter Rose RCSB PDB From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of Snijder, Arjan Sent: Friday, January 07, 2011 6:41 AM To: CCP4BB@JISCMAIL.AC.UK Subject: [ccp4bb] Looking for PDB His-tag statistics Dear all, Best wishes for the new year! I am looking for some statistics about the fraction of protein structures in the pdb that are actually crystallized with a His tag, and from those crystallized with a His tag whether these construct were engineered with a cleavable tag or not. Has anybody done such an analysis and would want to share the outcome? In the mean time I will mentally prepare myself for re-freshing my perl knowledge to write a script to do such an analysis. Any suggestions on how to quickly analyse this would be appreciated. cheers Arjan Arjan (Harm Jan) Snijder Associate Principal Scientist Astra Zeneca R&D, Mölndal Discovery Enabling Sciences and Capabilities, DECS SE-431 83 Mölndal Sweden tel: ++46 31 7763691 arjan.snij...@astrazeneca.com _____ Confidentiality Notice: This message is private and may contain confidential and proprietary information. If you have received this message in error, please notify us and remove it from your system and note that you must not copy, distribute or take any action in reliance on it. Any unauthorized use or disclosure of the contents of this message is not permitted and may be unlawful.
