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RNA Scaffold & Aptamer

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by

KUN LV

on 12 May 2013

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Transcript of RNA Scaffold & Aptamer

RNA Scaffold
& Aptamer Aptamer More details Details How to Select? Classification Features What is Aptamer? What is RNA Scaffold? Things left to consider What do we want to do about it? RNA Scaffold 1.To boost reactions.
2.To make reactions more organized.
3.To create metabolic combinations. 1.Metabolic pathways.
2.How to design? Aptamers are oligonucleic acid or peptide molecules that bind to a specific target molecule. Aptamers are usually created by selecting them from a large random sequence pool, but natural aptamers also exist in riboswitches. High affinity and specificity Aptamers are selected by SELEX(systematic evolution of ligands by exponential enrichment) in vitro.
Researches on aptamers have achieved much progress in biosensor, drug development and nano technology. Normally 25-60 nt.
Molecules:
Enzyme; GF; Antibody; Gene regulator; cell adhesion molecule; PHA; Virus particle;
pathogenic bacteria
Forces:
Hydrogen bond; accumulation;
electrostatic interaction;
shape match RNA scaffolds are synthetic
noncoding RNA molecules with engineered 3D folding harnessed to spatially organize proteins in vivo. Synthetic RNA scaffolds are engineered noncoding RNAs(nc RNAs) designed to bind and organize specific proteins. They rely on a simple principle: a designed gene is trascribed in vivo into an ncRNA whose secondary structure enables the controlled scaffolding of heterologous proteins in Escherichia coli via aptamer domains. Applications & Advantages Multienzyme pathways are often physically and spatially organized onto clusters through protein domain interactions, microcompartments or natural RNA scaffolds. Spatial organization helps direct substrate flow between interacting enzymes, limiting cross-talk and increasing the yields of sequential metabolic reactions. Applications Advantages The attraction of RNA scaffolds is their ability to be rationally programmed using the rules of base pairing. This offers access to larger scaffold, in which hundreds of proteins are gathered to work together. This confers the ability to control not only stoichiometry but also the distance and orientation between interacting proteins. To sum up A platform to bring things together Specific binding with proteins More controllable than Protein Scaffold DNA or RNA or XNA
Peptide aptamers
Full transcript