> On 08/22/2011 03:01 PM, Anuradha Balasubramanian wrote:
> Dear all,
>
> I have a problem . i crystallized same protein in two different pH and when
> viewing the results an important beta hairpin seems extended in PyMOL .
> (image link below).
> But analysis of hairpin in promotif shows that they are similar with same
> H-bonds.
> What can be the reason for such ambiguity?
>
> Regards
>
> ANU
>
>
> Dear ANU,
>
> I cannot follow the link to your picture, but one reason might be
> different algorithms in the two different programs for the secondary
> structure prediction. I am usually not too impressed by the suggestions
> that pymol make and you should always check the secondary structure
> prediction against your biochemical knowledge, at least to confirm the
> boundaries.
>
> Cheers, Tim
>
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