[modeller_usage] Dealing with flexible regions

[Lucas Bleicher <>]

I want to model a dimer of a two domain (A and B)
protein. The x-ray structures of the homodimers of the
two domains (A1+A2 and B1+B2) are known, and there's a
superposition of residues from the two structures.
However, if I superpose this common interval of
residues two connect the domains A1 and B1, A2 and B2
will not be connected, which is expectable, as the
domain linker is supposed to be flexible. What I want
to do, so, is a model job which considers the four
domains and their dimerization interfaces as almost
rigid, but let the linker region be flexible in order
to connect them properly. How could I do such a task?

Lucas


		
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