Hi!! I would like to know your take on the following task:
Given a target domain (A) I would like to design a binder (B) which is also part of an omodimer.
Around a C2 axis, the result would look like two binders symmetrically sandwiched between two targets:
A1B1/B2A2
It's my understanding that in normal C2 symmetric design the denoising occurs around the axis itself, allowing to form the symmetric interaction between chains. In this case the C2 axis is at a defined length from A. The designed B should bind A on one side and contact its' own copy on the other. The C2 axis should be aligned to RFD frame (z axis) but other than that, I'm having trouble finding the correct syntax for this task. What I'm getting is somthing like this:
Is there a way to do this?
Thanks for your help
Hi!! I would like to know your take on the following task:
Given a target domain (A) I would like to design a binder (B) which is also part of an omodimer.
Around a C2 axis, the result would look like two binders symmetrically sandwiched between two targets:
A1B1/B2A2
It's my understanding that in normal C2 symmetric design the denoising occurs around the axis itself, allowing to form the symmetric interaction between chains. In this case the C2 axis is at a defined length from A. The designed B should bind A on one side and contact its' own copy on the other. The C2 axis should be aligned to RFD frame (z axis) but other than that, I'm having trouble finding the correct syntax for this task. What I'm getting is somthing like this:
Is there a way to do this?
Thanks for your help