What are the degrees of freedom that are minimized when minimizng across a jump? Is it just a rotation (spin) about the jump vector and movement along the vector? I'm working on an interface design probelm and I've set up my movemap where sidechains are allowed to minimize, backbones are held fixed, and jumps are allowed to minimize. I'd like to perform a rigid-body minimization between my two chains and I'm trying to understand which degrees of freedom are minimized.
For example, suppose I have a fold-tree A through D as shown below, where B->C is a jump.
... A->B->C->D ...
Are the only degrees of freedom that are minimized the torsion around A-B, B-C, and C-D, and the vector along B-C?
If so, is there a way to also allow the angle A-B-C and B-C-D to minimize?
Thanks in advance.