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Hi Ashok,<br>
<br>
you need to define that bond manually. This can be done using custom
bonds machinery that is documented here:<br>
<br>
<a class="moz-txt-link-freetext" href="https://www.phenix-online.org/documentation/reference/refinement.html#definition-of-custom-bonds-and-angles">https://www.phenix-online.org/documentation/reference/refinement.html#definition-of-custom-bonds-and-angles</a><br>
<br>
If you have problems or questions please let me know.<br>
<br>
Pavel<br>
<br>
<div class="moz-cite-prefix">On 7/19/15 06:48, Ashok Nayak wrote:<br>
</div>
<blockquote
cite="mid:CAO-QEsCwgpK3yEw2DaGx5W2eq-PXhz1GrPbz5GdXyJxww8c0-A@mail.gmail.com"
type="cite">
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<div>Dear Phenix BB,</div>
<div><br>
</div>
<div>I am refining a helical bundle structure where I have been
obtaining an invariant short contact (close to 2A) at a Glu
residue with Lys of symmetry related molecule of one helix of
the bundle. I had been using Rigid body, TLS, occupancy and
Indv ADP for the refinement (which gave the best Rfree
values). If I include coordinate refinement the short contact
seems to be gone rather with higher Rfree values. I ll
appreciate some suggestions regarding this.</div>
<div><br>
</div>
<div>Thank you in advance.</div>
<div><br>
</div>
<div>Ashok Nayak</div>
<div>CSIR-CDRI</div>
<div>Lucknow, India �</div>
<div><br>
</div>
<br>
</div>
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