Thermal stability of solitons in protein $\alpha$-helices

Abstract

Protein$\alpha$-helices provide an ordered biological environment that is conducive to soliton-assisted energy transport. The nonlinear interaction between amide I excitons and phonon deformations induced in the hydrogen-bonded lattice of peptide groups leads to self-trapping of the amide I energy, thereby creating a localized quasiparticle (soliton) that persists at zero temperature. The presence of thermal noise, however, could destabilize the protein soliton and dissipate its energy within a finite lifetime. In this work, we have computationally solved the system of stochastic differential equations that govern the quantum dynamics of protein solitons at physiological temperature, T=310 K, for either a single isolated $\alpha$-helix spine of hydrogen bonded peptide groups or the full protein $\alpha$-helix comprised of three parallel $\alpha$-helix spines. The simulated stochastic dynamics revealed that although the thermal noise is detrimental for the single isolated $\alpha$-helix spine, the cooperative action of three amide I exciton quanta in the full protein $\alpha$-helix ensures soliton lifetime of over 30 ps, during which the amide I energy could be transported along the entire extent of an 18-nm-long $\alpha$-helix. Thus, macromolecular protein complexes, which are built up of protein $\alpha$-helices could harness soliton-assisted energy transport at physiological temperature. Because the hydrolysis of a single adenosine triphosphate molecule is able to initiate three amide I exciton quanta, it is feasible that multiquantal protein solitons subserve a variety of specialized physiological functions in living systems.

arXiv comment27 pages, 12 figures

References in corpus (19)

• Multiconfigurational time-dependent Hartree approaches for indistinguishable particles
• Quantum Lattice Solitons
• Best mean-field for condensates
• Solitons in alpha-helical proteins
• Crystalline boson phases in harmonic traps: Beyond the Gross-Pitaevskii mean field
• Soliton concepts and the protein structure
• On the quantum dynamics of Davydov solitons in protein $\alpha$-helices
• Time-dependent multi-orbital mean-field for fragmented Bose-Einstein condensates
• Bosonic molecules in rotating traps
• Computational capacity of pyramidal neurons in the cerebral cortex
• Self-consistent fragmented excited states of trapped condensates
• Quantum tunneling of Davydov solitons through massive barriers
• Launching of Davydov solitons in protein $\alpha$-helix spines
• A generalised Davydov-Scott model for polarons in linear peptide chains
• Axiomatic construction of quantum Langevin equations
• Long-range donor-acceptor electron transport mediated by alpha-helices
• Interacting Bosons beyond the Gross-Pitaevskii Mean-Field
• Quantum Langevin equation
• Exact analytical solution of a novel modified nonlinear Schrödinger equation: solitary quantum waves on a lattice

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