Conformational Biases of {\alpha}-Synuclein and Formation of Transient Knots

TL;DR

This study investigates the conformational biases of { extalpha}-synuclein, revealing its intrinsic disorder, propensity for local bends, and the formation of transient knots and contacts, with implications for its aggregation behavior.

Contribution

The paper provides detailed insights into the conformational biases and transient knot formation in { extalpha}-synuclein using all-atom simulations with explicit and implicit solvents.

Findings

{ extalpha}-synuclein is intrinsically disordered with a bias towards bends and turns.

Transient trefoil knots can form and last up to 5 microseconds.

Central sequence contacts dominate two-chain self-association events.

Abstract

We study local conformational biases in the dynamics of {\alpha}-synuclein by using all-atom simulations with explicit and implicit solvents. The biases are related to the frequency of the specific contact formation. In both approaches, the protein is intrinsically disordered, and its strongest bias is to make bend and turn local structures. The explicit-solvent conformations can be substantially more extended which allows for formation of transient trefoil knots, both deep and shallow, that may last for up to 5 {\mu}s. The two-chain self-association events, both short- and long-lived, are dominated by formation of contacts in the central part of the sequence. This part tends to form helices when bound to a micelle.