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PostPosted: Tue Dec 25, 2012 10:39 am 
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I want to see the interaction between two protein, computationally, structure of both are available at RCSB. One of the protein contains two chains, but their is no difference in sequence of both chains. i was wondering if i would delete one of the chain, how would it effect the binding orientation?
Any help will be appreciated.
Regards
Abida


Last edited by abida on Tue Jan 08, 2013 6:27 pm, edited 1 time in total.

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PostPosted: Wed Jan 02, 2013 9:12 pm 
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Hi Abida

I think it will not be wise to remove the chain. Actually some proteins are always present in dimeric form or there active form is a dimer. In those cases even if you predict interaction with monomeric unit, still your work will not be of any significance.

Only case in which you should remove one chain is if you know that monomer of protein is active.

I hope that will help you to get what you want.

Regards
Murli Mishra


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