29 May
2008
29 May
'08
9:55 a.m.
plmallip@mail.uh.edu wrote: > Is it possible to re-orient chains in a pentameric way after using one of > > those chains as template to build others?
This is so similar to the post you just sent to CCL that I'll duplicate my answer to that post here ;)
Why don't you just combine steps 1 and 2 into a single step? Modeller can build models using multiple templates, and will sort out the orientation for you. So your alignment would look something like:
AAAA/BBBB/CC-C/DDDD/EEEE (template 1) ----/----/EEEE/----/---- (template 2) aaaa/bbbb/cccc/dddd/eeee (target sequence)
Here 'template 2' is just another copy of the first pentameric template, using only the E chain, to fill in the missing residues in the C chain.
Ben Webb, Modeller Caretaker
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