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    Hi Almudena,<br>
    <br>
    what these values are? Could you please send me (off mailing list)
    model and data files after refinement for which you got this
    message?<br>
    <br>
    Thanks,<br>
    Pavel<br>
    <br>
    <div class="moz-cite-prefix">On 7/14/15 04:56, Almudena Ponce
      Salvatierra wrote:<br>
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                    <div>Dear all, <br>
                      <br>
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                    after refinement of my nucleic acid structure with
                    phenix.refine I get: "warning: rms deviation from
                    ideal geometry (bonds and/or angles) is
                    suspisciously high. You may need to optimize X-ray
                    stereochemistry weighting"<br>
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                  However when I move to the molprobity tab I see no
                  outliers no anything... looking weird. <br>
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                I even more wonder where this comes from because the
                fact is that I had one refinement with no warnings or
                anything and today I repeated the same, exactly the
                same, except for the fact that I renumbered one of the
                chains. Now all out of a sudden (I know it doesn't sound
                scientific at all), I get this warning regarding the
                rmsd when I was actually considering that the refinement
                stage was over. <br>
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              Does anybody have a theory regarding where the problem
              might be here? <br>
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            Thanks a lot in advance. <br>
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          Best wishes, <br>
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        Almudena<br clear="all">
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                        -- <br>
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                          <div dir="ltr">Almudena Ponce-Salvatierra
                            <div>Macromolecular crystallography and
                              Nucleic acid chemistry</div>
                            <div>Max Planck Institute for Biophysical
                              Chemistry</div>
                            <div>Am Fassberg 11 37077 Göttingen</div>
                            <div>Germany</div>
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