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What is the difference between "DNA-Programmable Chemical Machines" and Proteins? Aren't basically all Proteins DNA-Programmable Machines? I don't think you can

What is the difference between "DNA-Programmable Chemical Machines" and Proteins? Aren't basically all Proteins DNA-Programmable Machines? I don't think you can encode non-organic or organic chemistry without long-chained amino-acids, so why bother to use new nomenclature...?

DennisP 8y ago
Well for one, this new thing isn't made of proteins. It's just DNA, growing like a crystal and doing computations in the process.
lipman 8y ago
You're right but that's an additional layer of abstraction - check out the article / paper, they built a 6-bit "computer" using DNA and DNA superstructures only.
Nasrudith 8y ago
Intention mostly - machines imply design. Putting aside the philosophical questions if designed proteins unlike known ones still count as proteins doing data processing instead of structural and signaling (antigens) might count as something different from what has been found in nature. Not to mention proteins can be synthesized from ammino acids without DNA or RNA. One thing is certain all DNA programmable machines may count as proteins but not all proteins count as DNA programmable machines.
cge 8y ago
I'd argue that DNA is not the important thing here (and this work has nothing to do with biology): it is just a very convenient model for what chemistry can do with large varieties of interactions, as it is easy and inexpensive to synthesize and can be comparatively easily designed to have large sets of orthogonal interactions. Tile systems like this one could be built with other molecules, but it would be much harder to design. The question in tile assembly systems is how computation can be done by the crystallization process: you could compare them, not to protein function, but to protein folding. The DNA is not being used just as instructions to a machine: there is nothing in this paper but DNA, and the computational work is done entirely through strands of DNA binding to combinations of complementary sequences on the growing crystals: the "instructions" to the computer here are actually the computer itself.

DennisP 8y ago

Well for one, this new thing isn't made of proteins. It's just DNA, growing like a crystal and doing computations in the process.

lipman 8y ago

You're right but that's an additional layer of abstraction - check out the article / paper, they built a 6-bit "computer" using DNA and DNA superstructures only.

Nasrudith 8y ago

Intention mostly - machines imply design. Putting aside the philosophical questions if designed proteins unlike known ones still count as proteins doing data processing instead of structural and signaling (antigens) might count as something different from what has been found in nature. Not to mention proteins can be synthesized from ammino acids without DNA or RNA. One thing is certain all DNA programmable machines may count as proteins but not all proteins count as DNA programmable machines.

cge 8y ago

I'd argue that DNA is not the important thing here (and this work has nothing to do with biology): it is just a very convenient model for what chemistry can do with large varieties of interactions, as it is easy and inexpensive to synthesize and can be comparatively easily designed to have large sets of orthogonal interactions. Tile systems like this one could be built with other molecules, but it would be much harder to design. The question in tile assembly systems is how computation can be done by the crystallization process: you could compare them, not to protein function, but to protein folding. The DNA is not being used just as instructions to a machine: there is nothing in this paper but DNA, and the computational work is done entirely through strands of DNA binding to combinations of complementary sequences on the growing crystals: the "instructions" to the computer here are actually the computer itself.