Hard sphere-like dynamics in a non hard sphere liquid

The collective dynamics of liquid Gallium close to the melting point has been studied using Inelastic X-ray Scattering to probe lengthscales smaller than the size of the first coordination shell. %(momentum transfers, $Q$, $>$15 nm$^{-1}$). Although the structural properties of this partially covalent liquid strongly deviate from a simple hard-sphere model, the dynamics, as reflected in the quasi-elastic scattering, are beautifully described within the framework of the extended heat mode approximation of Enskog's kinetic theory, analytically derived for a hard spheres system. The present work demonstrates the applicability of Enskog's theory to non hard- sphere and non simple liquids.Comment: 5 pages, 2 figures, accepted in Phys. Rev. Let

TEMPO-oxidized cellulose nanofibril/polyvalent cations hydrogels: a multifaceted view of network interactions and inner structure

In the last years, hydrogels from renewable biopolymers and low-cost row materials are a hot topic for biomedical applications. In this context, cellulose nanofibrils are considered suitable building blocks for the synthesis of many biocompatible products, with a variety of chemical-physical properties. Herein we report a multi-technique and multi-scale study, from the molecular to the nanometric length scale, of the sol-gel transition observed in aqueous solutions of TEMPO-oxidized nano-sized cellulose fibrils (TOCNFs), when in the presence of polyvalent cations (Mg2+ and Ca2+). We combine the data from Small Angle Neutron Scattering (SANS), which provide information about the inner structure of the nanofibril, with those from UV Resonant Raman (UVRR) spectroscopy, which is a sensitive probe of the intra- and inter-molecular interactions in the gel and the liquid state. The transition between the gel and the liquid phases is investigated as a function of the concentration of both TOCNFs and cations, the nature of the latter, and the pH at which the phenomenon is observed. SANS analysis reveals that ion concentration induces an anisotropic swelling in the nanofibrils which, at the same time, become more and more flexible. The nanofibrils flexibility is also dependent on TOCNF concentration and pH value. UVRR allows us to elucidate the structural organization and hydrogen-bonding properties of water in aqueous TOCNF dispersions and gels, showing how water molecules partially lose their typical bulk-like tetrahedral organization when ions are added, and the gel phase is formed

High-performance versatile setup for simultaneous Brillouin-Raman micro-spectroscopy

This is the author accepted manuscript. The final version is available from American Physical Society via the DOI in this record.Brillouin and Raman scattering spectroscopy are established techniques for the nondestructive contactless and label-free readout of mechanical, chemical and structural properties of condensed matter. Brillouin-Raman investigations currently require separate measurements and a site-matched approach to obtain complementary information from a sample. Here we demonstrate a new concept of fully scanning multimodal micro-spectroscopy for simultaneous detection of Brillouin and Raman light scattering in an exceptionally wide spectral range, from fractions of GHz to hundreds of THz. It yields an unprecedented 150 dB contrast, which is especially important for the analysis of opaque or turbid media such as biomedical samples, and spatial resolution on a sub-cellular scale. We report the first applications of this new multimodal method to a range of systems, from a single cell to the fast reaction kinetics of a curing process, and the mechano-chemical mapping of highly scattering biological samples.S. Corezzi acknowledges financial support from MIUR-PRIN (Project No. 2012J8X57P). S. Caponi acknowledges support from PAT (Provincia Autonoma di Trento) (GP/PAT/2012) “Grandi Progetti 2012” Project “MaDEleNA.” P. S., A. M., M. P. acknowledge financial support from Centro Nazionale Trapianti (Project: “Studio di cellule per uso clinico umano, con particolare riferimento a modelli cellulari (liposomi) e linee cellulari in interazione con crioconservanti e con materiali biocompatibili”). L. C. and S. Caponi acknowledge financial support from Consiglio Nazionale delle Ricerche-Istituto Officina dei Materiali. F. P. acnowledges support from the UK Engineering and Physical Sciences Research Council (Grant No. EP/M028739/1 (F. P.)). The authors acknowledge Jacopo Scarponi for valuable help in setting up the hardware and software system for simultaneous Raman and BLS measurements

Stacking Interactions and flexibility of human telomeric multimers

G-quadruplexes (G4s) are helical four-stranded structures forming from guanine-rich nucleic acid sequences, which are thought to play a role in cancer development and malignant transformation. Most current studies focus on G4 monomers, yet under suitable and biologically relevant conditions, G4s undergo multimerization. Here, we investigate the stacking interactions and structural features of telomeric G4 multimers by means of a novel low-resolution structural approach that combines small-angle X-ray scattering (SAXS) with extremely coarse-grained (ECG) simulations. The degree of multimerization and the strength of the stacking interaction are quantitatively determined in G4 self-assembled multimers. We show that self-assembly induces a significant polydispersity of the G4 multimers with an exponential distribution of contour lengths, consistent with a step-growth polymerization. On increasing DNA concentration, the strength of the stacking interaction between G4 monomers increases, as well as the average number of units in the aggregates. We utilized the same approach to explore the conformational flexibility of a model single-stranded long telomeric sequence. Our findings indicate that its G4 units frequently adopt a beads-on-a-string configuration. We also observe that the interaction between G4 units can be significantly affected by complexation with benchmark ligands. The proposed methodology, which identifies the determinants that govern the formation and structural flexibility of G4 multimers, may be an affordable tool aiding in the selection and design of drugs that target G4s under physiological conditions

Inelastic x-ray scattering reveals the ergodic to nonergodic transition of salol, a liquid with local order

We have studied the high-frequency dynamics of salol by inelastic x-ray scattering over a wide temperature range between 50 and 450 K, across the glass transition. We find that salol efficiently realizes the mechanism of dynamical arrest described by the mode-coupling theory, as manifested by a cusp singularity in the behaviour of the non-ergodicity parameter and a $Q$ dependence of the critical non-ergodicity parameter that is in phase with the static structure factor. These results confront positively the mode-coupling theory with liquids with local order.Comment: 7 pages, 6 figure

The dimer-monomer equilibrium of SARS-CoV-2 main protease is affected by small molecule inhibitors

The maturation of coronavirus SARS-CoV-2, which is the etiological agent at the origin of the COVID-19 pandemic, requires a main protease Mpro to cleave the virus-encoded polyproteins. Despite a wealth of experimental information already available, there is wide disagreement about the Mpro monomer-dimer equilibrium dissociation constant. Since the functional unit of Mpro is a homodimer, the detailed knowledge of the thermodynamics of this equilibrium is a key piece of information for possible therapeutic intervention, with small molecules interfering with dimerization being potential broad-spectrum antiviral drug leads. In the present study, we exploit Small Angle X-ray Scattering (SAXS) to investigate the structural features of SARS-CoV-2 Mpro in solution as a function of protein concentration and temperature. A detailed thermodynamic picture of the monomer-dimer equilibrium is derived, together with the temperature-dependent value of the dissociation constant. SAXS is also used to study how the Mpro dissociation process is affected by small inhibitors selected by virtual screening. We find that these inhibitors affect dimerization and enzymatic activity to a different extent and sometimes in an opposite way, likely due to the different molecular mechanisms underlying the two processes. The Mpro residues that emerge as key to optimize both dissociation and enzymatic activity inhibition are discussed

Effect of entropy on the dynamics of supercooled liquids: New results from high pressure data

We show that for arbitrary thermodynamic conditions, master curves of the entropy are obtained by expressing S(T,V) as a function of TV^g_G, where T is temperature, V specific volume, and g_G the thermodynamic Gruneisen parameter. A similar scaling is known for structural relaxation times,tau = f(TV^g); however, we find g_G < g. We show herein that this inequality reflects contributions to S(T,V) from processes, such as vibrations and secondary relaxations, that do not directly influence the supercooled dynamics. An approximate method is proposed to remove these contributions, S_0, yielding the relationship tau = f(S-S_0).Comment: 10 pages 7 figure

Three Stages of Lysozyme Thermal Stabilization by High and Medium Charge Density Anions

Addition of high and medium charge density anions (phosphate, sulfate, and chloride) to lysozyme in pure water demonstrates three stages for stabilization of the protein structure. The first two stages have a minor impact on lysozyme stability and are probably associated with direct interaction of the ions with charged and partial charges on the protein’s surface. There is a clear transition between the second and third stages; in the case of sodium chloride, disodium sulfate and disodium hydrogen phosphate this is at 550, 210, and 120 mM, respectively. Stabilization of lysozyme can be explained by the free energy required to hydrate the protein as it unfolds. At low ion concentrations, the protein’s hydration layer is at equilibrium with the bulk water. After the transition, bulk water is depleted and the protein is competing for water with the ions. With competition for water between the protein and the ions at higher salt concentrations, the free energy required to hydrate the interior of the protein rises and it is this that stabilizes the protein structure