alignment and QSAR?

[Jianxin Guo <guojx $#at#$ yahoo.com>]

Hi, CCLers,
 Most of commercial software for 3D or 4D QSAR required
 for alignment of the molecules. Which is necessary for
 the field analysis (especially for CoMFA) and 3D
 descriptors. However, we know the tooplogy of the
 molecules structure determine the possibility of the
 alignment.so there must be some mothods to avoid the
 slow alignment. Are there any good papers for
 discussing this issue?
 Even for the alignment, the so-called pharmacophore or
 template should be used. The idea is similar, which is
 better? The pharmacophore asked information about the
 docking packet. so template is simpler as a starting
 point?
 Thanks,
 Jianxin
 __________________________________________________
 Do You Yahoo!?
 Yahoo! Mail - Free email you can access from anywhere!
 http://mail.yahoo.com/