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Most likely wrong ligand CIF file.<br>
Pavel<br>
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<div class="moz-cite-prefix">On 10/4/15 21:51, Smith Liu wrote:<br>
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cite="mid:3b1997f3.57d9.1503657158a.Coremail.smith_liu123@163.com"
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<div>Dear All,</div>
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<div>I have tried a phenix.real_space_refine with a ligand cif
and without ligand cif (both with ligand PDB in the whole
protein-ligand PDB for refine), I find with ligand cif in the
input can lead to significant increase of the clash score for
the refined PDB.</div>
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<div>Will you please make comment on whether the clash score
incensement by adding cif in the input was a general
phenomenon, or only specific to my situation, and how to solve
it?</div>
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<div>Best regards.</div>
<div><br>
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<div><br>
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<div>Smith<br>
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<pre>
At 2015-10-05 02:14:28, "Pavel Afonine" <a class="moz-txt-link-rfc2396E" href="mailto:pafonine@lbl.gov"><pafonine@lbl.gov></a> wrote:
>Yes.
>Pavel
>
>On 10/4/15 02:19, Smith Lee wrote:
>> Dear All,
>>
>> Does phenix.refine can process some ligands without the process by eLBOW, for example ATP, ADP,etc?
>>
>>
>> Smith
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