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[modeller_usage] multi-chain modelling



Dear Modeller,

    I want to build a model A in the presence of Model B ie to get an
effect of presence of Model B on A.i used the alignment as follows

>model_A
aaaaaaaaaaaaaaabbbbbbbbbbbbb
>templateA
aaaaaaaaaaaaaaa-------------
>Model_B
---------------bbbbbbbbbbbbbb

Is this alignment correct. and what script i sould use since i want to use
Model B for creating an environment but not for modelling.is this approach
correct for multi chain modelling?

with regards
Nadeem Ahmad