Difference between revisions of "Strand-Displacement"
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The strand-displacement mechanism uses competitive binding of two identical nucleic acid sequences, the competing strand and the switching strand. It is based on rational design and results in the disruption or restoration of the hammerhead ribozyme as a result of restoration in the aptamer domain. | The strand-displacement mechanism uses competitive binding of two identical nucleic acid sequences, the competing strand and the switching strand. It is based on rational design and results in the disruption or restoration of the hammerhead ribozyme as a result of restoration in the aptamer domain. | ||
== Competing strand == | == Competing strand == | ||
| − | The competing strand is the nucleic acid sequence that is bound to the the general transmission region in the restored switch conformation in the presence of a ligand | + | The competing strand is the nucleic acid sequence that is bound to the the general transmission region in the restored switch conformation in the presence of a ligand [http://www.pnas.org/cgi/content/full/0703961104/DC1#ST (Supplementary Information)]. |
== Switching strand == | == Switching strand == | ||
Revision as of 18:06, 6 December 2007
The strand-displacement mechanism uses competitive binding of two identical nucleic acid sequences, the competing strand and the switching strand. It is based on rational design and results in the disruption or restoration of the hammerhead ribozyme as a result of restoration in the aptamer domain.
Competing strand
The competing strand is the nucleic acid sequence that is bound to the the general transmission region in the restored switch conformation in the presence of a ligand (Supplementary Information).
Switching strand
The switching strand is the nucleic acid sequence that is bound to the general transmission region in the disrupted switch conformation in the absense of a ligand
http://www.pnas.org/content/vol104/issue36/images/large/zpq0340773700002.jpeg
Figure 2. "Regulatory properties of the strand-displacement information transmission mechanism. The color scheme corresponds to that used in Fig. 1 with the following exceptions: switching strand, red; competing strand, green. (A) Gene expression ON ribozyme switch platform, L2bulge1. (B) Gene expression OFF ribozyme switch platform, L2bulgeOff1. (C and D) The theophylline-dependent gene-regulatory behavior of L2bulge1 (ON switch) (C), L2bulgeOff1 (OFF switch) (D), and L2Theo (nonswitch control). Gene-expression levels are reported in fold as defined in SI Text and were normalized to the expression levels in the absence of effector" (Win and Smolke 2007).
http://www.pnas.org/content/vol104/issue36/images/large/zpq0340773700004.jpeg
Figure 3. "Tunability of the strand-displacement-based ribozyme switches. (A) Sequences targeted by the rational tuning strategies are indicated in the dashed boxes on the effector-bound conformations of L2bulge1 (ribozyme-inactive) and L2bulgeOff1 (ribozyme-active). (B and C) Regulatory activities of tuned strand-displacement-based ON (B) and OFF (C) ribozyme switches. Gene-regulatory effects of these switches at 5 mM theophylline are reported in fold induction for ON switches and fold repression for OFF switches relative to the expression levels in the absence of theophylline as described in Fig. 2" (Win and Smolke 2007).
Links
Applications of Ribozymes in Synthetic Systems - Danielle Jordan
