Harnessing Pressure-Axis Experiments to Explore Volume Fluctuations, Conformational Substates, and Solvation of Biomolecular Systems

Intrinsic thermodynamic fluctuations within biomolecules are crucial for their function, and flexibility is one of the strategies that evolution has developed to adapt to extreme environments. In this regard, pressure perturbation is an important tool for mechanistically exploring the causes and effects of volume fluctuations in biomolecules and biomolecular assemblies, their role in biomolecular interactions and reactions, and how they are affected by the solvent properties. High hydrostatic pressure is also a key parameter in the context of deep-sea and subsurface biology and the study of the origin and physical limits of life. We discuss the role of pressure-axis experiments in revealing intrinsic structural fluctuations as well as high-energy conformational substates of proteins and other biomolecular systems that are important for their function and provide some illustrative examples. We show that the structural and dynamic information obtained from such pressure-axis studies improves our understanding of biomolecular function, disease, biological evolution, and adaptation.

Sensitivity of Isomerization Kinetics of 1,3,5-Triphenylformazan on Cosolvents Added to Toluene

Formazan molecules exhibit photochromism because isomerization processes following excitation may occur in both the azo group and the hydrazone group; thus, each formazan may be present in various forms with different colors. The ratio of these forms depends on the illumination conditions and the environment of the formazan with a most incisive sensibility of the thermal anti-syn relaxation of the C═N toward slight traces of impurities in toluene solutions, as reported most prominently for 1,3,5-triphenylformazan. Here, we study the latter compound with transient absorption spectroscopy to investigate the role of these traces by adding small amounts of both protic and aprotic cosolvents. Whereas the activation barrier decreases if the binary solvent mixture has a higher polarity, the role of hydrogen bonding can have a reverse impact on the thermal isomerization rate. Both the addition of an aprotic cosolvent and the addition of a protic cosolvent can slow the reaction due to their hydrogen-bond accepting and hydrogen-bond donating properties, respectively. In the case of methanol as a cosolvent, this effect outweighed that of the polarity increase for small concentrations, which was not observed for the fluorinated alcohol hexafluoroisopropanol. The results are explained in the context of a competition between solute-cosolvent and cosolvent-cosolvent hydrogen bonding.

How a linear triazene photoisomerizes in a volume-conserving fashion

Understanding deactivation mechanisms of functional groups is a key step to design novel photo-active devices and molecular imaging agents. Here, we elucidate the photochemistry of linear triazenes, an extended analogue of the photo-switchable azo group, exemplarily for the widely used DNA-minor-groove binder berenil. Combining ultrafast spectroscopy and ab initio calculations unveils that the E-azo,s-trans structure of berenil predominates in the gas phase and in aqueous solution, and ADC(2) intrinsic reaction coordinate calculations disclose that the excited-state relaxation to the S1 minima/conical intersections follows a two-step mechanism: N[double bond, length as m-dash]N bond stretching followed by a bicycle-pedal rotation in the triazene bridge. Furthermore, studying the ground-state pathways shows that a fraction of the molecules relaxes back to the E-azo,s-trans isomer while the other part photoisomerizes to the Z-azo,s-trans via a hula-twist motion, as evidenced by experimental quantum yields of Φ ≈ 0.5 found for berenil in water, ethylene glycol, or bound to β-trypsin. Moreover, our studies show that while the excited-state relaxation is insensitive to the environment, the ground-state dynamics depend on biomolecular binding partners.