Why is protein folding important? Theoretical importance? Can we do something with protein folding knowledge? If so, what?
I've been hearing about AlphaFold from the CS side. There they seem to focus on protein folding primarily as an interesting space to apply their CS efforts.
So yeah the applications are enormous, from medicine to better industrial chemical processes, from warfare to food manufacturing.
Does that imply proteins have some dynamics that need to be predicted too? I remember seeing animations of molecular machines that appeared to be "walking" inside the body - are those proteins or more complex structures?
A classic example is haemoglobin, that 'just' binds to oxygen at the iron in the middle of the haem. Other binding sites remote from the oxygen binding one can bind to other molecules - notably carbon dioxide. The 'Bohr effect' mechanism is outlined here : https://en.wikipedia.org/wiki/Bohr_effect#Allosteric_interac...
Even at the lowest level, there is some evidence that ligand binding can affect the structure of the backbone of the protein. For example, peptide plane flipping https://en.wikipedia.org/wiki/Peptide_plane_flipping although I'm not sure where the research is on this nowadays.
I often recommend the book 'Cats' Paws and Catapults' by Steven Vogel, which discusses the differences between human and biological engineering. There are very different constraints, as well as the more obvious difference between intelligently directed design (by humans) and evolutionary design.
It's not totally true that our engineering is simpler than biological systems. After all, we can now manipulate matter down to the atomic level. There have been attempts to move towards self-assembling systems, or even self-repairing ones. Not quite on the same scale or sophistication as biological systems, of course.
Is a modern computer chip more complex than a virus? Is a large connected system of computers more complex than a mycelial network? Are there more parts connected in more ways in a nuclear power station as there are in a simple bacterial cell?
I think it is definitely worth considering the similarities and differences.
I think my sense that biology is more complex than human engineering is that our engineering seems much more homogeneous. Computer chips are certainly very dense but the individual number of different component types are very small. Biology on the other hand seems to have a huge number of fundamental building blocks, e.g. proteins, with different behaviors. I suppose that maybe that's the wrong comparison though and software is where our engineering diversity is present.
It may well just be the case that my lack of familiarity with biology makes it seem more complex to me.
But nobody will ever understand everything about a natural cell. Levels are an ad hoc phenomenon adhered to in varying degrees in certain places to contain variation. But few elements have only one role at one identifiable level, and you can never be sure one doesn't have another. And huge amounts of apparatus might radically change behavior in a subtly different environment.