[chimerax-users] Question about the comparative homology modelling tool

[Moradkhan, Tiglath A]

Hi

I have two questions about the homology modelling tool:


  1.  Why is the default number of models to be built five? Does having five models provide a better choice for choosing the best model?
  2.  In evaluating a protein model which of the following parameters plays a much more dominating role: zDOPE, predicted RMSD or the predicted native overlap? Or do all three measures contribute the same effect on model evaluation? For instance a model might have a low zDOPE score but have a higher RMSD while another model might have a much more positive zDOPE score but a lower RMSD. Based on this, would the first model be the better one to pick or do both models have equal weight in terms of overall model quality?

I would be very glad for advice.


Thanks

Tiglath
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimerax-users/attachments/20210112/c3fdc760/attachment.html>