Bug in Protter
Bott, Michael
Hi Protter team,
I like to use Protter, but in the past weeks I experienced that it sometimes did not work properly.
For example, it doesn’t predict a transmembrane helices for the protein sequence
MSAAGVLDRRVAREAARWLMHLASGQASADDAAACERWRASDTRHEQAWQHAQRVNDLLG
GLPPQLLHATLGRPAHKTRRLALKAMAGMALGTPAAWAAWRGGRETGLLADYRSAPGERR
DIVLPGGTFVSLNSGSALDLSDDGAVLRAGEVYVRAGLRCVAHAPQGQVTASHARYALRL
DAEGCRIEVYEGQVQVRPALGVAATLAAPQAACFDAYTVRLRSAALESEPAWLRGVLHVN
AMPLAAFAAELGRYRRGLVRCAQAVAALPVSGTFQLDNTEGILRALPALLPVSVRSRTPY
WIVIDKT
while other programs clearly predict at least 4 TMHs. Also in a second example the prediction
of TMHs did not work properly:
MAEHNAIITDAVHSDPAVLEDNAGFSGKYLIRALDKAAHMQTGAIEGYISWLRKHNPEKTPAQLQVLVDKHFMRLATGSGAGVGMAAAVPGIGFVTGALAVGAESLVFLDAAAFYTMASAHLRGIDIRHPERRRGLILVVLLGTAGKAIVDAGVGDLSKKNHAPGIAISRFNIGGLMEVNGRLMRYAVKEVSKRFRSALIGKILPFGIGAVLGTMANRKIAKRTVGNAYDSLGPLPTHF
Maybe you can find the reason for these bugs.
Best wishes,
Michael
* * * *
Prof. Dr. Michael Bott
IBG-1: Biotechnology
Institute of Bio- and Geosciences
Forschungszentrum Jülich
Email: m.b...@fz-juelich.de
Phone: +49 (0)2461 613294
https://www.fz-juelich.de/ibg/ibg-1/EN/Research/forschung_node.html
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