Convergent assembly to hierarchical assembly correspondences
- In context of self-assembly it is often called hierarchical selfassembly
- In context of positional assembly it is called convergent assembly
First level
First assembly level in a gemstone metamaterial on chip factory,
See: Assembly level 1
First self-assembly level in SDN:
- from single stranded DNA
- to SDN blocks (needs a better name)
More precisely input parts are:
- DNA oglionucleotides (aka staple strands, aka DNA bricks) and optionally mixed in ...
- longer viral DNA strands (aka scaffold strands)
The process is mostly self-finding type self-assembly. With scaffold strands there is a bit of crossover to self-folding bringing
- benefits of increased effective concentration and
- downsides of steric traps?
First self-assembly level in de-novo protein engineering engineering:
self-folding of the chain of amino acids
- from primary structure
- to secondary and tertiary structure
Side-note: secondary structure is often quite stable
Artificial de-novo protein will mostly stick to tertiary structure
that does not reduce stability by a lot.
Anything nearing an intrinsically disordered protein is likely of little systematic engineering interest.
Second level
Second assembly level in a gemstone metamaterial on chip factory,
See: Assembly level 2
Second self-assembly level in SDN:
- from SDN blocks (needs a better name)
- to SDN multi block assemblies
- This is done by changing salt concentrations
- This assembly step is reversible.
- SDN Blocks are semi rigid
- SDN Blocks are made to have shape complementary surfaces
- SDN Blocks typically have a (slightly twisted) cartesian or hexagonal voxel grid
Second self-assembly level in de-novo protein engineering engineering:
self-finding type of self-assembly
- from fully folded proteins (secondary and tertiary structure)
- to multi protein assemblies (quaternary structure)
Side-note: secondary structure is often quite stable Artificial de-novo protein will mostly stick to tertiary structure that does not reduce stability by a lot. Anything nearing an intrinsically disordered protein is likely of little systematic engineering interest.
For both DNA-Blocks and folded-proteins:
- The process is purely self-finding type self-assembly.
- Bigger block sizes means smaller diffusion speeds.
- Stiff blocks mean erroneous assemblies can't zip off again (German saying: "was liegt das pickt")
Third level (and above)
Third assembly level in a gemstone metamaterial on chip factory,
See: Assembly level 3
Both
have not reached this level yet (as of 2022)
Related
- self-assembly – hierarchical selfassembly
- de-novo protein engineering
- SDN Structural DNA nanotechnology
External links
Wikipedia:
