Functional-State Dependence of Picosecond Protein Dynamics.

J Phys Chem B

Department of Physics, University at Buffalo, SUNY, Buffalo, New York 14260, United States.

Published: October 2021

We examine temperature-dependent picosecond dynamics of two benchmarking proteins lysozyme and cytochrome using temperature-dependent terahertz permittivity measurements. We find that a double Arrhenius temperature dependence with activation energies ∼ 0.1 kJ/mol and ∼ 10 kJ/mol fits the folded and ligand-free state response. The higher activation energy is consistent with the so-called protein dynamical transition associated with beta relaxations at the solvent-protein interface. The lower activation energy is consistent with correlated structural motions. When the structure is removed by denaturing, the lower-activation-energy process is no longer present. Additionally, the lower-activation-energy process is diminished with ligand binding but not for changes in the internal oxidation state. We suggest that the lower-energy activation process is associated with collective structural motions that are no longer accessible with denaturing or binding.

Download full-text PDF

Source
http://dx.doi.org/10.1021/acs.jpcb.1c05018DOI Listing

Publication Analysis

Top Keywords

∼ kj/mol
8
activation energy
8
energy consistent
8
structural motions
8
lower-activation-energy process
8
functional-state dependence
4
dependence picosecond
4
picosecond protein
4
protein dynamics
4
dynamics examine
4

Similar Publications

Background: The pathways of thermal instability of amino acids have been unknown. New mass spectrometric data allow unequivocal quantitative identification of the decomposition products.

Results: Calorimetry, thermogravimetry and mass spectrometry were used to follow the thermal decomposition of the eight amino acids G, C, D, N, E, Q, R and H between 185 °C and 280 °C.

View Article and Find Full Text PDF

In the first committed reaction of chlorophyll biosynthesis, magnesium chelatase couples ATP hydrolysis to the thermodynamically unfavorable Mg(2+) insertion into protoporphyrin IX (ΔG°' of circa 25-33 kJ·mol(-1) ). We explored the thermodynamic constraints on magnesium chelatase and demonstrate the effect of nucleotide hydrolysis on both the reaction kinetics and thermodynamics. The enzyme produces a significant rate enhancement (kcat /kuncat of 400 × 10(6) m) and a catalytic rate enhancement, kcat/KmDIXK0.

View Article and Find Full Text PDF

Viscosity, relaxation time, and dynamics within a model asphalt of larger molecules.

J Chem Phys

January 2014

Department of Chemical Engineering, University of Rhode Island, Kingston, Rhode Island 02881, USA.

The dynamics properties of a new "next generation" model asphalt system that represents SHRP AAA-1 asphalt using larger molecules than past models is studied using molecular simulation. The system contains 72 molecules distributed over 12 molecule types that range from nonpolar branched alkanes to polar resins and asphaltenes. Molecular weights range from 290 to 890 g/mol.

View Article and Find Full Text PDF

Substituent effects in double-helical hydrogen-bonded AAA-DDD complexes.

Chemistry

January 2012

Department of Chemistry, The University of Western Ontario, 1151 Richmond St., London, ON, N6A 5B7, Canada.

Two series of DDD and AAA hydrogen-bond arrays were synthesized that form triply-hydrogen-bonded double-helical complexes when combined in CDCl(3) solution. Derivatization of the DDD arrays with electron-withdrawing groups increases the complex association constants by up to a factor of 30 in those arrays examined. Derivatization of the AAA arrays with electron donating substituents reveals a similar magnitude effect on the complex stabilities.

View Article and Find Full Text PDF

Acid-base thermochemistry of gaseous aliphatic α-aminoacids.

Phys Chem Chem Phys

January 2011

Laboratoire des Mécanismes Réactionnels, UMR CNRS 7651, Département de Chimie, Ecole Polytechnique, F-91128 Palaiseau cedex, France.

Acid-base thermochemistry of isolated aliphatic amino acids (denoted AAA): glycine, alanine, valine, leucine, isoleucine and proline has been examined theoretically by quantum chemical computations at the G3MP2B3 level. Conformational analysis on neutral, protonated and deprotonated species has been used to identify the lowest energy conformers and to estimate the population of conformers expected to be present at thermal equilibrium at 298 K. Comparison of the G3MP2B3 theoretical proton affinities, PA, and ΔH(acid) with experimental results is shown to be correct if experimental thermochemistry is re-evaluated and adapted to the most recent acidity-basicity scales.

View Article and Find Full Text PDF

Want AI Summaries of new PubMed Abstracts delivered to your In-box?

Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!