Biomod/2013/StJohns/introduction: Difference between revisions
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Since binding-specifc conformational change can be transduced into a signal, this should enable the design of nanometre-scale sensors for viruses. | Since binding-specifc conformational change can be transduced into a signal, this should enable the design of nanometre-scale sensors for viruses. | ||
In our proof-of-principle approach, the origami structure is a three-pronged DO ‘claw’<sup>[[Biomod/2013/StJohns/References|[2]]]</sup> with sticky-ended DNA strands complementary to the surface of a modified<sup>[[Biomod/2013/StJohns/References|[3]]]</sup> bacteriophage MS2 capsid substrate. | In our [[Biomod/2013/StJohns/Approaches#claw|proof-of-principle approach]], the origami structure is a three-pronged DO ‘claw’<sup>[[Biomod/2013/StJohns/References|[2]]]</sup> with sticky-ended DNA strands complementary to the surface of a modified<sup>[[Biomod/2013/StJohns/References|[3]]]</sup> bacteriophage MS2 capsid substrate. | ||
In parallel, we will investigate several other aspects of the design: | In parallel, we will investigate several other aspects of the design: | ||
* We will make ‘libraries’ of claws that have different geometries of virus-binding sites and select the most avid claw(s) for further study and optimization. | * [[Biomod/2013/StJohns/Approaches#selection|We will make ‘libraries’ of claws that have different geometries of virus-binding sites and select the most avid claw(s) for further study and optimization.]] | ||
* We will investigate immunoglobulins as potential binding elements for use in future claw designs. | * [[Biomod/2013/StJohns/Approaches#antibodies|We will investigate immunoglobulins as potential binding elements for use in future claw designs.]] | ||
* We will investigate methods of controlling the vertex angles of DO structures using computer-aided design. | * [[Biomod/2013/StJohns/Approaches#triangles|We will investigate methods of controlling the vertex angles of DO structures using computer-aided design.]] | ||
Revision as of 11:21, 24 October 2013
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Abstract
The goal of this project is to design and characterize a DNA origami[1] (DO) structure that undergoes significant conformational changes when bound to objects ranging in size from 10-100 nm.
Since binding-specifc conformational change can be transduced into a signal, this should enable the design of nanometre-scale sensors for viruses.
In our proof-of-principle approach, the origami structure is a three-pronged DO ‘claw’[2] with sticky-ended DNA strands complementary to the surface of a modified[3] bacteriophage MS2 capsid substrate.
In parallel, we will investigate several other aspects of the design:
- We will make ‘libraries’ of claws that have different geometries of virus-binding sites and select the most avid claw(s) for further study and optimization.
- We will investigate immunoglobulins as potential binding elements for use in future claw designs.
- We will investigate methods of controlling the vertex angles of DO structures using computer-aided design.
To characterize the conformational changes and binding interactions of this system, we will use four primary methods:
- Gel Electrophoresis
- Atomic Force Microscopy
- Förster Resonance Energy Transfer (FRET) analysis
- Dynamic Light Scattering
Youtube video
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