Hi, Kanika, are you looking for biological units of proteins when you say stable dimer? If this is the case, I recommend the page:
http://pdbwiki.org/index.php/Biological_unit at the bottom of the page you can find four very useful servers for the determination of biological units of proteins (PQS is not updated anymore): The Protein Quaternary Structure Server (PQS) [2] or [3] The Macro-Molecular Structure Database (MSD) [4] or [5] The Protein Interfaces, Surfaces and Assemblies server (Pisa) [6] Protein quaternary structure investigation (PiQSi) [7] As a matter of fact, the PDB also provides the biological assembly of each PDB entry for download. More information can be found at: http://www.rcsb.org/pdb/static.do?p=education_discussion/Looking-at-Structures/bioassembly_tutorial.html If your protein is not from the PDB, you can still try pisa ( http://www.ebi.ac.uk/msd-srv/prot_int/pistart.html ), which accepts protein coordinate files uploaded by the users and determines the "stable dimer" or else-mer of your protein. hope these help! hongbo On 02/25/2011 01:46 PM, kanika sharma wrote: > Hi, > i am working to generate a dimer of my protein..I have made a duplicate > of my protein....Can any one tell me how to rotate my molecule to get > maximum stability..??? > > > Regards.. > Kanika > > > > ------------------------------------------------------------------------------ > Free Software Download: Index, Search& Analyze Logs and other IT data in > Real-Time with Splunk. Collect, index and harness all the fast moving IT data > generated by your applications, servers and devices whether physical, virtual > or in the cloud. Deliver compliance at lower cost and gain new business > insights. http://p.sf.net/sfu/splunk-dev2dev > > > > _______________________________________________ > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net -- Hongbo ZHU Postdoctoral Researcher Structural Bioinformatics Technische Universität Dresden Biotechnology Center Tatzberg 47/49 01307 Dresden, Germany Tel.: +49 (0) 351 463-40083 Fax: +49 (0) 351 463-40087 E-Mail: hongbo....@biotec.tu-dresden Webpage: www.biotec.tu-dresden.de ------------------------------------------------------------------------------ Free Software Download: Index, Search & Analyze Logs and other IT data in Real-Time with Splunk. Collect, index and harness all the fast moving IT data generated by your applications, servers and devices whether physical, virtual or in the cloud. Deliver compliance at lower cost and gain new business insights. http://p.sf.net/sfu/splunk-dev2dev _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
