I tried to predict two RNA strands with cas9 (PDB ID: 4OO8).
However, RNA structures were crashed like fragment of skein.
Not only for this, but also same RNA structure were simulated without protein.
Overall structure was good but there is a disconnection in single strand.
I wonder if this is normally happen in this prediction or there are some problems in my simulation.
I tried to predict two RNA strands with cas9 (PDB ID: 4OO8). However, RNA structures were crashed like fragment of skein. Not only for this, but also same RNA structure were simulated without protein. Overall structure was good but there is a disconnection in single strand. I wonder if this is normally happen in this prediction or there are some problems in my simulation.