Instruct: Identify the main category of Biorxiv papers based on the titles and abstracts
Query: Design of intrinsically disordered proteins that undergo phase transitions with lower critical solution temperatures Many naturally occurring elastomers are intrinsically disordered proteins (IDPs) built up of repeating units and they can demonstrate two types of thermoresponsive phase behavior. Systems characterized by lower critical solution temperatures (LCST) undergo phase separation above the LCST whereas systems characterized by upper critical solution temperatures (UCST) undergo phase separation below the UCST. There is congruence between thermoresponsive coil-globule transitions and phase behavior whereby the theta temperatures above or below which the IDPs transition from coils to globules serve as useful proxies for the LCST / UCST values. This implies that one can design sequences with desired values for the theta temperature with either increasing or decreasing radii of gyration above the theta temperature. Here, we show that the Monte Carlo simulations performed in the so-called intrinsic solvation (IS) limit version of the temperature-dependent the ABSINTH (self-Assembly of Biomolecules Studied by an Implicit, Novel, Tunable Hamiltonian) implicit solvation model, yields a useful heuristic for discriminating between sequences with known LCST versus UCST phase behavior. Accordingly, we use this heuristic in a supervised approach, integrate it with a genetic algorithm, combine this with IS limit simulations, and demonstrate that novel sequences can be designed with LCST phase behavior. These calculations are aided by direct estimates of temperature dependent free energies of solvation for model compounds that are derived using the polarizable AMOEBA (atomic multipole optimized energetics for biomolecular applications) forcefield. To demonstrate the validity of our designs, we calculate coil-globule transition profiles using the full ABSINTH model and combine these with Gaussian Cluster Theory calculations to establish the LCST phase behavior of designed IDPs.
25
The categories of this paper are: bioengineering
17
The categories of this paper are: molecular
29
The categories of this paper are: education
19
The categories of this paper are: epidemiology
28
The categories of this paper are: communication
26
The categories of this paper are: biochemistry
30
The categories of this paper are: scientific
1
The categories of this paper are: bioinformatics
15
The categories of this paper are: developmental
20
The categories of this paper are: pharmacology
2
The categories of this paper are: biology
0
The categories of this paper are: genetics
12
The categories of this paper are: behavior
16
The categories of this paper are: microbiology
27
The categories of this paper are: pathology
4
The categories of this paper are: neuroscience