Dear Francois, Intekhab the correct reference for the Sc statistic is
Lawrence, M. C. & Colman, P. M. (1993). Shape complementarity at protein/protein interfaces. J. Mol. Biol. 234, 946-950. You can also find a description in the March 2001 CCP4 newsletter (#39). I am not certain why you cannot find it within the Windows version - it should simply be called "SC". sincerely Mike Mike Lawrence, PhD Associate Professor and WEHI Fellow Division of Structural Biology Walter and Eliza Hall Institute of Medical Research 1G Royal Parade, Parkville Victoria 3052, AUSTRALIA Tel. 61-3-9345-2693 Fax 61-3-9345-2686 Email: lawre...@wehi.edu.au > Hi, > > This is the first time I read about "shape complementarity statistics". > > According to: > "A structural basis for the activity of retro-DielsAlder catalytic > antibodies: Evidence for a catalytic aromatic residue" > > As seen here: > http://www.pnas.org/content/99/15/9674.full > > --- > [...] compute the SHAPE COMPLEMENTARITY STATISTICS index (Sc). This > statistics index measures the geometric surface complementarity via the > use of normal products, and the extent to which the interacting surface > elements are brought into proximity via an exponential distance > separation term. Sc values usually range from 0.70 to 0.76 for > proteinaseprotein inhibitor surfaces, from 0.64 to 0.68 for > antigenantibody complexes, and from 0.45 to 0.70 for MHCpeptide > complexes (30). > --- > > I am frightened. :( > I don't think this is in my book "The cartoon guide > to statistics". Despite the book is really nice. > > Regards, > F. > > intekhab alam wrote: >> I want to calculate the shape comlementarity statitics (SC) of a dimeric >> protein using CCp4. I am using CCP4 6.1.3 on windows but the SC program >> is not available in that suite. >> Which version of CCP4 has that program. Are there any other programs >> that can calculate that. >> >> Thanks >> >> -- >> INTEKHAB ALAM >> LABORATORY OF STRUCTURAL BIOINFORMATICS >> KOREA UNIVERSITY, SEOUL > ______________________________________________________________________ The information in this email is confidential and intended solely for the addressee. You must not disclose, forward, print or use it without the permission of the sender. ______________________________________________________________________
