Proteins in Wonderland: The Magical World of Pressure

Admitting the “Native”, “Unfolded” and “Fibril” states as the three basic generic states of proteins in nature, each of which is characterized with its partial molar volume, here we predict that the interconversion among these generic states N, U, F may be performed simply by making a temporal excursion into the so called “the high-pressure regime”, created artificially by putting the system under sufficiently high hydrostatic pressure, where we convert N to U and F to U, and then back to “the low-pressure regime” (the “Anfinsen regime”), where we convert U back to N (U→N). Provided that the solution conditions (temperature, pH, etc.) remain largely the same, the idea provides a general method for choosing N, U, or F of a protein, to a great extent at will, assisted by the proper use of the external perturbation pressure. A successful experiment is demonstrated for the case of hen lysozyme, for which the amyloid fibril state F prepared at 1 bar is turned almost fully back into its original native state N at 1 bar by going through the “the high-pressure regime”. The outstanding simplicity and effectiveness of pressure in controlling the conformational state of a protein are expected to have a wide variety of applications both in basic and applied bioscience in the future.

Impacts of Varying Concentrations of Cloud Condensation Nuclei On Deep Convective Cloud Updrafts – A Multimodel Assessment

This study presents results from a model intercomparison project, focusing on the range of responses in deep convective cloud updrafts to varying cloud condensation nuclei (CCN) concentrations amongst seven, state-of-the-art, cloud-resolving models. Simulations of scattered convective clouds near Houston, Texas are conducted, after being initialized with both relatively low and high CCN concentrations. Deep convective updrafts are identified, and trends in the updraft intensity and frequency are assessed. The factors contributing to the vertical velocity tendencies are examined to identify the physical processes associated with the CCN-induced, updraft changes.The models show several consistent trends. In general, the changes between the High-CCN and Low-CCN simulations in updraft magnitudes throughout the depth of the troposphere are within 15% for all of the models. All models produce stronger (~+5-15%) mean updrafts from ~4–7 km above ground level (AGL) in the High-CCN simulations, followed by a waning response up to ~8 km AGL in most of the models. Thermal buoyancy was more sensitive than condensate loading to varying CCN concentrations in most of the models and more impactful in the mean updraft responses. However, there are also differences between the models. The change in the amount of deep convective updrafts varies significantly. Furthermore, approximately half the models demonstrate neutral-to-weaker (~-5-0%) updrafts above ~8 km AGL, while the other models show stronger (~+10%) updrafts in the High-CCN simulations. The combination of the CCN-induced impacts on the buoyancy and vertical perturbation pressure gradient terms better explains these middle- and upper-tropospheric updraft trends than the buoyancy terms alone.

Onset of Convection in Two-Dimensional Porous Cavities with Open and Conducting Boundaries

The onset of thermal convection in two-dimensional porous cavities heated from below is studied theoretically. An open (constant-pressure) boundary is assumed, with zero perturbation temperature (thermally conducting). The resulting eigenvalue problem is a full fourth-order problem without degeneracies. Numerical results are presented for rectangular and elliptical cavities, with the circle as a special case. The analytical solution for an upright rectangle confirms the numerical results. Streamlines penetrating the open cavities are plotted, together with the isotherms for the associated closed thermal cells. Isobars forming pressure cells are depicted for the perturbation pressure. The critical Rayleigh number is calculated as a function of geometric parameters, including the tilt angle of the rectangle and ellipse. An improved physical scaling of the Darcy–Bénard problem is suggested. Its significance is indicated by the ratio of maximal vertical velocity to maximal temperature perturbation.

Dynamics of Simulated High-Shear Low-CAPE Supercells

High-shear low-CAPE environments prevalent in the southeastern U.S. account for a large fraction of tornadoes and pose challenges for operational meteorologists. Yet, existing knowledge of supercell dynamics, particularly in the context of cloud-resolving modeling, is dominated by moderate- to high-CAPE environments typical of the Great Plains. This study applies high-resolution modeling to clarify the behavior of supercells in the more poorly understood low-CAPE environments, and compares them to a benchmark simulation in a higher-CAPE environment. Simulated low-CAPE supercells’ main updrafts do not approach the theoretical equilibrium level; their largest vertical velocities result not from buoyancy, but from dynamic accelerations associated with low-level mesocyclones and vortices. Surprisingly, low-CAPE tornado-like vortex parcels also sometimes stop ascending near the vortex top instead of carrying large vorticity upward into the midlevel updraft, contributing to vortex shallowness. Each of these low-CAPE behaviors is attributed to dynamic perturbation pressure gradient accelerations that are maximized in low levels, which predominate when the buoyancy is small.

A Simple Model of Convective Drafts Accounting for the Perturbation Pressure Term

A simple anelastic two-column model of convective updraft accounting explicitly for the perturbation pressure term is developed. There is no vertical wind shear in the environment, and two geometries (slab or axial) are possible. A shape factor is introduced to account for transport by a nonuniform horizontal profile of the vertical velocity in the updraft and its environment. The perturbation buoyancy profile being prescribed, three parameters must be prescribed: depth and aspect ratio of the updraft and the total cell size. The model is tested for idealized buoyancy profiles and evaluated against a large-eddy simulation of daytime development of deep convection. The model behavior agrees with our understanding of the perturbation pressure within clouds. The simulated updraft quickly responds to the buoyancy field (~5 min), shorter than the convection time scale, so that a steady model could be developed. Below the updraft core, a downward pressure gradient is simulated allowing the updraft to overcome a barrier of convective inhibition. This model is designed to be implemented in a convection scheme to replace classical drag formulations of the updraft model.

Investigating the Transition from Elevated Multicellular Convection to Surface-Based Supercells during the Tornado Outbreak of 24 August 2016 Using a WRF Model Simulation

On 24 August 2016, a tornado outbreak impacted Indiana, Ohio, and Ontario with 26 confirmed tornadoes. Elevated multicellular convection developed into surface-based supercells that produced several tornadoes, particularly near a differential heating boundary. This convective mode transition is of particular interest owing to its relatively rare occurrence. A WRF Model simulation accurately captures the environment and storm evolution during this outbreak. Trajectory analyses indicate that the multicellular updrafts were initially elevated. Since nearly all of the vertical wind shear was confined to the lowest 1 km, significant rotation did not develop via tilting of horizontal vorticity until the storms began ingesting near-surface air. Near-surface vertical wind shear decreased outside of cloud cover owing to vertical mixing, while it was preserved under the anvil, allowing for large values of 0–1-km storm-relative helicity to persist north of a differential heating boundary. Analysis of the perturbation pressure field from the WRF Model output indicates that the development of relatively large nonlinear vertical perturbation pressure gradients coincided with when near-surface air began to enter the updrafts, resulting in upward accelerations in the lowest 2 km, below the level of maximum rotation. In strengthening updrafts, upward-directed buoyancy perturbation pressure accelerations may have offset the downward-directed nonlinear perturbation pressure accelerations above the level of maximum rotation, allowing the updrafts to intensify further.

The Influence of Vertical Wind Shear on Moist Thermals

Although it is well established that vertical wind shear helps to organize and maintain convective systems, there is a longstanding colloquial notion that it inhibits the development of deep convection. To investigate this idea, the vertical momentum budgets of sheared and unsheared moist thermals were compared in idealized cloud model simulations. Consistent with the idea of vertical wind shear inhibiting convective development, convection generally deepened at a slower rate in sheared simulations than in unsheared simulations, and the termination heights of thermals in sheared runs were correspondingly lower. These differences in deepening rates resulted from weaker vertical acceleration of thermals in the sheared compared to the unsheared runs. Downward-oriented dynamic pressure acceleration was enhanced by vertical wind shear, which was the primary reason for relatively weak upward acceleration of sheared thermals. This result contrasts with previous ideas that entrainment or buoyant perturbation pressure accelerations are the primary factors inhibiting the growth of sheared convection. A composite thermal analysis indicates that enhancement of dynamic pressure acceleration in the sheared runs is caused by asymmetric aerodynamic lift forces associated with shear-driven cross flow perpendicular to the direction of the thermals’ ascent. These results provide a plausible explanation for why convection is slower to deepen in sheared environments and why slanted convection tends to be weaker than upright convection in squall lines.

The Development of Severe Vortices within Simulated High-Shear, Low-CAPE Convection

Environments characterized by large values of vertical wind shear and modest convective available potential energy (CAPE) are colloquially referred to as high-shear, low-CAPE (HSLC) environments. Convection within these environments represents a considerable operational forecasting challenge. Generally, it has been determined that large low-level wind shear and steep low-level lapse rates—along with synoptic-scale forcing for ascent—are common ingredients supporting severe HSLC convection. This work studies the specific processes that lead to the development of strong surface vortices in HSLC convection, particularly associated with supercells embedded within a quasi-linear convective system (QLCS), and how these processes are affected by varying low-level shear vector magnitudes and lapse rates. Analysis of a control simulation, conducted with a base state similar to a typical HSLC severe environment, reveals that the key factors in the development of a strong surface vortex in HSLC embedded supercells are (i) a strong low- to midlevel mesocyclone, and (ii) a subsequent strong low-level updraft that results from the intense, upward-pointing dynamic perturbation pressure gradient acceleration. Through a matrix of high-resolution, idealized simulations, it is determined that sufficient low-level shear vector magnitudes are necessary for the development of low- to midlevel vertical vorticity [factor (i)], while steeper low-level lapse rates provide stronger initial low-level updrafts [factor (ii)]. This work shows why increased low-level lapse rates and low-level shear vector magnitudes are important to HSLC convection on the storm scale, while also revealing similarities between surface vortexgenesis in HSLC embedded supercells and higher-CAPE supercells.