Re: [ccp4bb] homology modeling of dimeric proteins
Have you tried with Interactome3D? http://interactome3d.irbbarcelona.org Best, Roberto
Re: [ccp4bb] Alignment software
Another tool you can use is RAPIDO (http://webapps.embl-hamburg.de/rapido). It identifies rigid bodies between the two structures and already produces pyMol scripts for the superposition both on the entire structure and on the single rigid bodies. A more complete list of the tools you can use can be found here: http://en.wikipedia.org/wiki/Structural_alignment_software
Re: [ccp4bb] Characterization of Protein Conformational Changes
I version of ESCET working in a pairwise fashion on different conformation of the same structure or structures of similar proteins with different sequences is also available as a web-server. The algorithm is called RAPIDO and you can find it here: webapps.embl-hamburg.de/rapido And is described in the two references: http://www.ncbi.nlm.nih.gov/pubmed/18727838 http://www.ncbi.nlm.nih.gov/pubmed/18460546 Best, Roberto -- Roberto Mosca, Ph.D. Structural Bioinformatics Group Institute for Research in Biomedicine (IRB Barcelona) Parc Científic de Barcelona C/ Baldiri Reixac 10-12 08028 Barcelona - Spain Email: roberto.mo...@irbbarcelona.org Tel: +34 93 403 96 89 Web: http://gatealoy.pcb.ub.es/people/roberto_mosca.html
Re: [ccp4bb] Need help for supperimpose 2 homologous molecules
Try RAPIDO: http://webapps.embl-hamburg.de/rapido Roberto Dr. Roberto Mosca EMBL c/o DESY Notkestr. 85 22607 Hamburg Germany Email: [EMAIL PROTECTED] Tel: +49 (0)40 89902 131 Web: http://www.embl-hamburg.de/~rmosca On Apr 12, 2008, at 2:57 AM, conancao wrote: Dear all: I have problem to supperimpose 2 homologous proteins(only one subunit is homologous) in coot.Could anybody give suggestion either using coot or other easily availabe software to superimpose homologous structures(pdb) and give a finial superimposed pdb or picture. Thank you. Sincerely, Hongnan Cao Biochem Department University of California at Riverside 使用新一代 Windows Live Messenger 轻松交流和共享！ 立即体验！
