Sat. Sept. 22nd, 2012
EBI
Sorry, I pointed you to the wrong PM.
N-methyl and not alpha-Methyl Proline
The RESID is still a very good source for Protein Modifications.
I suggest you write to RESID creator
John Garavelli [log in to unmask]
He might be able to help you.
Sorry again
Miri Hirshberg PDBe
On Sat, 22 Sep 2012, Miri Hirshberg wrote:
> Sat. Sept. 22nd, 2012
> EBI
>
> Good evening,
>
> N-methyl-Pro is a known protein modification.
>
> Was observed in Histone H2B from Drosophila for example. UniProt P02283
> indicates that PTM Methylation at Pro-2 increases upon heat shock
>
> The source (specie) and the conditions the protein were expressed in are
> important.
>
> The best DB for Protein modification is the RESID http://www.ebi.ac.uk/RESID/
> the entry is AA0419
>
> Hope this help
>
> Miri Hirshberg PDBe
>
> p.s. PDB used to have a chem_comp dictionary entry for
> this modification, PKR, now obsoleted.
>
> On Sat, 22 Sep 2012, Nicholas M Glykos wrote:
>
>> Dear All,
>>
>> We have a structure at its final stages of refinement (R~0.215,
>> Rfree~0.235) whose 1.9A 2mFo-DFc and mFo-DFc maps are a pleasure to have
>> and to share, with the notable exception of a 'feature' present on one of
>> the prolines:
>>
>> https://dl.dropbox.com/u/11392126/alpha-Me-proline.jpg
>>
>> [the positive (green) contour of the difference map stands at a hefty 5
>> sigma above mean]. It looks as if this is an alpha-Methyl-L-Proline but my
>> attempts to locate natural occurences of this modification in proteins
>> have all failed. Any ideas or suggestions or pointers ?
>>
>> All the best,
>> Nicholas
>>
>> --
>>
>>
>> Nicholas M. Glykos, Department of Molecular Biology
>> and Genetics, Democritus University of Thrace, University Campus,
>> Dragana, 68100 Alexandroupolis, Greece, Tel/Fax (office) +302551030620,
>> Ext.77620, Tel (lab) +302551030615, http://utopia.duth.gr/~glykos/
>>
>
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