<html><head></head><body><div class="yahoo-style-wrap" style="font-family:Helvetica Neue, Helvetica, Arial, sans-serif;font-size:13px;"><div dir="ltr" data-setdir="false">Dear All,</div><div dir="ltr" data-setdir="false"><br></div><div dir="ltr" data-setdir="false">With chimera I open A.pdb abd B.pdb. A.pdb contains domain a and doain b, B.pdb contains domain b and domain c, which is to say, the 2 structures share a common domain b.</div><div dir="ltr" data-setdir="false"><br></div><div dir="ltr" data-setdir="false">Will you please tell me the chimera specific command to align or match the 2 structures based fully on the common domain b in each structure, without consideration of the domain a and domain c for calculation of the alignment?</div><div dir="ltr" data-setdir="false"><br></div><div dir="ltr" data-setdir="false">Best wishes,</div><div dir="ltr" data-setdir="false"><br></div><div dir="ltr" data-setdir="false">Smith<br></div><div dir="ltr" data-setdir="false"><br></div><div dir="ltr" data-setdir="false"><br></div></div></body></html>