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First in the way in which they calculate the differences between the measured activity and the predicted activity (the "loss"), for example whether they use the square of the differences between measured and predicted activities (square loss), or whether they place more weight on differences between measured and predicted activities for the more active variants (matching loss).
This study demonstrates that endonuclease mutants with altered specificity and non-lethal activity can be evolved towards more active variants using a laboratory evolution strategy.
Similar to wild-type MLL3, the two active variants (S4757C and Y4884C) showed stronger methyltransferase activity in the presence of the complex members.
Experimentally, we assayed only 2912 and 1294, respectively, using the adrenaline on-plate pre-test for activity (Wahler and Reymond 2002) followed by chiral GC analysis of the active variants.
iv) Finally we performed a manual analysis of the activity data from the first 49 variants, combining substitutions that occurred frequently within active variants (1 50 to 1 59, design method F in Additional file 2).
Active variants gave colourless wells.
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To activate Raf, a 4-HT-inducible, constitutively active variant of Raf-1, termed Raf ER, was stably expressed in the MCF-10A cells [ 25, 27].
Recently, MT-III, a catalytically active variant Asp49PLA2 from B. asper venom, has been shown to activate macrophages to form increased amounts of LDs [ 22], but no such effect has been described for the action of Lys49PLA2s.
More commonly, however, one does have a very poor protein (clone) with at least some measurable activity, and the aim is to evolve this into a much more active variant.
The previously reported defects in autophosphorylation may not be relevant in the context of the active variant of the receptor in which point mutations permit ligand-independent receptor activation and inhibit the receptor downregulation via internalization.
ii) To see which of the remaining 6 substitutions destroyed proteinase K activity, we synthesized variants containing the substitutions that had not occurred within an active variant (1 26 to 1 33, design method C in Additional file 2).
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