Dear Modellers,<br><br>I have two questions about using Modeller to build a chimera protein based on two known structures (as in #1 of the FAQ):<br>1.&nbsp; How does Modeller determine the initial relative orientations of the two structures?&nbsp; 
<br>2.&nbsp; Is there a way to extensively sample the relative orientations of the two structures?&nbsp; Perhaps through randomization of dihedral angles, loop modeling, or some other approach?<br><br>Any insight that you have to share would be much appreciated.
<br><br>Best regards,<br>Lillian<br>