Alex Carlin edited untitled.md  over 8 years ago

Commit id: 617a86fb62d89458537bf1edf04bedc4e8e931e7

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# Specific citable statements we want to make Introduction   [Probably start with modeling]  Bagel is an excellent model system   Bagel uses residues E164, E353, and T295 as catalytic residues \cite{Isorna_2007}  [Prior work incorporating data into protein modeling (adding evolutionary history, adding chemical constraints (Steve's project), adding ...)]  [Bagel enzyme in general, represents a common fold and evolutionary conserved function and diverse sequences that all fold the same way and have the same function, just residing in different organisms]  Evolutionary constraints limit protein evolvability in the sense that only certain mutations are physically possible (SNP-accessible, not divert folding trajectory) \cite{19765975}  People have tried to model the biophysical constraints on protein evolution but they rarely have any actual mutational data to draw from (only the "fossil record" of known holomologus sequences and the evolutionary history of the organisms that we see a snapshot of) \cite{25165599} [Briefly describe what we did in this study]