Why not just use PROCHECK program?
在 2012年2月22日 下午6:24，Thomas Holder <thomas.hol...@tuebingen.mpg.de> 写道：
> Hi Dialing,
>
> if you know some python you can use PyMOL.
>
> # get C-alpha b-factors as list
> from pymol import cmd, stored
> stored.bfactors = []
> cmd.iterate('name CA', 'stored.bfactors.append((b,resv))')
>
> # min/max b-factors with residue number
> print min(stored.bfactors)
> print max(stored.bfactors)
>
> # data for plotting
> x = [resv for (b,resv) in stored.bfactors]
> y = [b for (b,resv) in stored.bfactors]
>
> # plot to a pdf file with matplotlib
> from matplotlib.pyplot import figure
> from matplotlib.backends.backend_pdf import PdfPages
> fig = figure()
> sub = fig.add_subplot(111)
> sub.plot(x, y)
> pp = PdfPages('bfactors.pdf')
> fig.savefig(pp, format='pdf')
> pp.close()
>
> Hope that helps.
>
> Cheers,
> Thomas
>
>
> On 02/22/2012 05:04 AM, Dialing Pretty wrote:
>>
>> Dear All,
>>
>> Will you please tell me a server of software which can draw a curve for
>> the B factor of the atoms in a protein PDB file from the first residue
>> to the residue?Or a server or software by which we can easily order the
>> B factors of the atoms in the PDB file according to the B factor in
>> decrease or in increase? Or to get the residues with the highest B
>> factor and the lowest B factor?
>>
>> Cheers,
>>
>> Dialing
>
>
> --
> Thomas Holder
> MPI for Developmental Biology
> Spemannstr. 35
> D-72076 Tübingen
--
Cheng Chen, Ph.D. Candidate
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