IGEM:Harvard/2006/Brainstorming Papers - Valerie

Papers: 1. http://www.cs.duke.edu/~thl/papers/NanoTrack.2005.pdf

  This paper demonstrated how it is possible to attach a certain array of proteins (in this case, they used streptavidin) onto a 2D DNA nanogrid. The self-assembling nanogrid served as a template for the self-assembly of streptavidin protein arrays. Intersection points at the grid where they wanted streptavidin to bind had a biotin group incorporated in order to mediate the streptavidin binding onto that site. From this method, they also talked about how to make 1D DNA nanotracks.
   We talked a little about binding proteins or other molecules onto a DNA nanostructure and this paper shows that this is quite possible. We might not be able to do a large lattice, but we can perhaps apply their method of attaching proteins onto our own specific nanostructure. Also, we can try to attach different proteins onto different places? The beginning of the paper mentions several applications of doing so, which is quoted as follows: "Fully programmable DNA templated protein arrays, where individual proteins can be positioned with precision and specificity, could allow us to build function protein templates with nanometer dementions for single molecule detection. Such assemblies may also prove useful for future nanoscale "factories" by positioning enzymes at desired locations according to their functions to allow sequential reactions on substrates in a flow. Precisely controlled organization of protein molecules onto periodic 2D DNA lattices could also enable us to gain insights into protein structure using 2D cryoelectron microscopy diffraction."

2. http://www3.interscience.wiley.com.ezp1.harvard.edu/cgi-bin/fulltext/110526995/PDFSTART

Additional Literature:

1. http://www.cs.duke.edu/~thl/papers/SupraMolec.Chapt.12.2005.pdf

2. http://www.nsti.org/Nanotech2006/program.html

3. http://www.iop.org.ezp1.harvard.edu/EJ/toc/0957-4484/15/10

4. http://www.cs.duke.edu/~thl/pages/publications.html

5. http://www3.interscience.wiley.com.ezp1.harvard.edu/cgi-bin/fulltext/110526995/PDFSTART

New Ideas?

1. http://biosingularity.wordpress.com/2006/01/05/physicists-create-first-robust-dna-building-blocks-for-use-in-nanofabrication/

"As well as potential applications in the manufacture of nanostructures such as molecular electrical circuits, Professor Turberfield’s team are investigating using the DNA tetrahedra as containers for individual protein molecules: a technique which if successful could one day lead to new methods of drug delivery." if only they actually told us how we could do this...

2. "A biologist might use DNA origami to take proteins which normally occur separately in nature and organize them into a multi-enzyme factory that hands a chemical product from one enzyme machine to the next in the manner of an assembly line."

3. using DNA nanostructures to transport charges (for DNA repair?) - Barton lab at Caltech: http://www.its.caltech.edu/~jkbgrp/Publications.htm