Dear DIY-Biologists
I currently work on a project which aims to re-engineer TOR in S.cerevisiae BY4742 in order to lose its specifity for certain substrates.
As TOR1 [http://www.yeastgenome.org/cgi-bin/FUNGI/getSeq.pl?seq=YJR066W_BY4742] is a kinase which phosphorylates one of my proteins of interest - ATG13 [http://www.yeastgenome.org/cgi-bin/FUNGI/getSeq.pl?seq=YPR185W_BY4742],
I tried to figure out which sites in ATG13 are subject to TOR dependent phosphorylation and important for inhibitition of autophagy. This lead me to the ATG13 8SA mutant[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2815578/] wherein eight important sites were identfied.
This again leads me to my current main problem, which is to identify where TOR is able to bind and/or identify (to) the related motif in ATG13 [S-X-S*-P].
Are there any programs available to predict these recognition sites [preferable with fasta support (not only pdb)] ?
Thanks in advance
Bruno Lederer
-- I currently work on a project which aims to re-engineer TOR in S.cerevisiae BY4742 in order to lose its specifity for certain substrates.
As TOR1 [http://www.yeastgenome.org/cgi-bin/FUNGI/getSeq.pl?seq=YJR066W_BY4742] is a kinase which phosphorylates one of my proteins of interest - ATG13 [http://www.yeastgenome.org/cgi-bin/FUNGI/getSeq.pl?seq=YPR185W_BY4742],
I tried to figure out which sites in ATG13 are subject to TOR dependent phosphorylation and important for inhibitition of autophagy. This lead me to the ATG13 8SA mutant[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2815578/] wherein eight important sites were identfied.
This again leads me to my current main problem, which is to identify where TOR is able to bind and/or identify (to) the related motif in ATG13 [S-X-S*-P].
Are there any programs available to predict these recognition sites [preferable with fasta support (not only pdb)] ?
Thanks in advance
Bruno Lederer
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