Fixed-angle polygonal chains in three dimensions serve as an interesting
model of protein backbones. Here we consider such chains produced inside a "machine" modeled crudely as a cone, and examine
the constraints this
model places on the producible chains. We call this notion producible, and prove as
our main result that a chain whose maximum turn angle is α
is producible in a cone of half-angle ≥ α
if and only if the chain is flattenable, that is, the chain can be reconfigured without self-intersection to lie flat in a
plane. This result establishes that two seemingly disparate classes of chains are in fact identical. Along the way, we discover
that all producible configurations of a chain can be moved to a canonical configuration resembling a helix. One consequence
is an algorithm that reconfigures between any two flat states of a "nonacute chain" in O(n) "moves," improving the O(n
2)-move algorithm in [ADD+]. Finally, we prove that the producible chains are rare in the following technical sense. A random
chain of n links is defined by drawing the lengths and angles from any "regular" (e.g., uniform) distribution on any subset
of the possible values. A random configuration of a chain embeds into ℝ
3 by in addition drawing the dihedral angles from any regular distribution. If a class of chains has a locked configuration
(and no nontrivial class is known to avoid locked configurations), then the probability that a random configuration of a random
chain is producible approaches zero geometrically as n → ∞.
Polygonal chains - Locked chains - Fixed-angle chains - Flattenable chains - Protein folding - Protein backbone