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At least 19 records

Inorganic and Protein Crystal Assembly in Solutions

The basic kinetic and thermodynamic concepts of crystal growth will be revisited in view of recent AFM and interferometric findings. These concepts are as follows: 1) The Kossel crystal model that allows only one kink type on the crystal surface. The modern theory is developed overwhelmingly for the Kessel model; 2) Presumption that intensive step fluctuations maintain kink density sufficiently high to allow applicability of Gibbs-Thomson law; 3) Common experience that unlimited step bunching (morphological instability) during layer growth from solutions and supercooled melts always takes place if the step flow direction coincides with that of the fluid.

Chernov, A. A.↗

Tetragonal Lysozyme, From Monomer to Crystal

The data now leads us to a comprehensive model for the process by which tetragonal lysozyme crystals are nucleated and subsequently grow. Lysozyme is typically desolubilized by addition of ionic salts. The salt anions bind to basic and other sites on the protein and promote protein-protein interactions, i.e., initiate the nucleation self assembly process. Formation of protein-protein interactions occurs at the expense of the protein-anion interactions, with the anions being released to the solution. The association follows a defined pattern, forming the "head to side" interactions of the crystal 4(3) helix. The presence of the high salt also promotes hydrophobic interactions between the protein molecules, further tightening their interaction. The solute assembly process persists after crystal nucleation, and the 4(3) helical structures form the subsequent growth units. AFM measurements show that the growth units follow the dimensions of these helices, and that those on the surface are more compact about the c-axis than in the bulk crystal, with adjacent helices riot being in contact. This further supports the role of hydrophobic interactions, as the surface is still in contact with the bulk solution. Once buried within the crystal the protein:salt ratio radically changes and the hydrophobic interactions relax to those measured crystallographically. Thus the crystal growth process recapitulates the initial stages of the nucleation process, and the two seamlessly merge. Experimental evidence, based upon face growth rate, AFM, and fluorescence energy transfer data, for a postulated model of the nucleation of tetragonal lysozyme crystals and how it transitions into crystal growth will be presented.

Pusey, Marc L.↗

Prediction of the oscillating incompressible aerodynamics of a loaded airfoil cascade by a locally analytical method

A complete first order model is developed to predict the oscillating incompressible aerodynamics of an airfoil cascade, including the effects of steady loading. The cascade steady and unsteady flow fields are analyzed by considering a periodic flow channel. The velocity potential is separated into steady and unsteady harmonic components each of which is described by a Laplace equation. An analytical solution in individual grid elements of a body fitted computational grid is then determined, with the complete solution obtained by assembling these local solutions. The capabilities and validity of this model and solution technique are demonstrated by considering the steady and unsteady aerodynamics of both theoretical and experimental cascade configurations.

Chiang, Hsiao-Wei D.↗

Nonlinear Modeling by Assembling Piecewise Linear Models

To preserve nonlinearity of a full order system over a parameters range of interest, we propose a simple modeling approach by assembling a set of piecewise local solutions, including the first-order Taylor series terms expanded about some sampling states. The work by Rewienski and White inspired our use of piecewise linear local solutions. The assembly of these local approximations is accomplished by assigning nonlinear weights, through radial basis functions in this study. The efficacy of the proposed procedure is validated for a two-dimensional airfoil moving at different Mach numbers and pitching motions, under which the flow exhibits prominent nonlinear behaviors. All results confirm that our nonlinear model is accurate and stable for predicting not only aerodynamic forces but also detailed flowfields. Moreover, the model is robustness-accurate for inputs considerably different from the base trajectory in form and magnitude. This modeling preserves nonlinearity of the problems considered in a rather simple and accurate manner.

Yao, Weigang↗

A Proposed Pathway for the Nucleation and Crystal Growth of the Tetragonal Form of Lysozyme

A number of factors, the shape and charge distribution anisotropy, multiple components in the solution (buffer + counter ion, precipitant, protein, and water), conformational flexibility, and large numbers of intermolecular contacts, all serve as complicating variables in understanding the nucleation and growth mechanism for macromolecules. Intermolecular contacts include hydrogen bonds, van der Waals, hydrophobic, salt bridges, and ion-mediated contacts. The latter interactions are stronger and give specificity while the others are weaker, more prevalent, and more promiscuous, i.e., can lead to a range of possible molecular interactions. We propose that for tetragonal lysozyme, and by extension many other monomeric proteins, there is a solution-phase assembly process to form 4(sub 3) helix structures that are the basic unit for nucleation. The formation of these structures is continuous and concentration dependent. They subsequently also servc as growth units, with that process then being a recapitulation of the nucleation process. The advantages of solution phase assembly are the immediate burying of the strongest interactions, removing them from subsequent participation in the nucleation and growth process, and the introduction of symmetry into the system, which also assists in the assembly process.

Pusey, Marc L.↗

Comprehensive Evaluation of Electrochemical Hydrogen Separator as Hydrogen Recovery Solution for Plasma Pyrolysis Assembly

The previously tested State-of-the-Art (SOA) air revitalization architecture onboard the International Space Station recovers approximately 50% of the oxygen (O 2 ) from metabolic carbon dioxide (CO 2 ) via the Sabatier process. Maximum O 2 recovery is required to reduce resupply mass for long-duration manned missions. O 2 recovery is constrained by the limited availability of reactant hydrogen (H 2 ) from water (H 2 O) electrolysis, and Sabatier-produced methane (CH 4 ) is vented as a waste product resulting in a continuous loss of reactant H 2 . The Plasma Pyrolysis Assembly (PPA) has the potential to substantially increase O 2 recovery by post-processing the Sabatier-produced methane to recover H 2 . The PPA decomposes CH 4 into predominately H 2 and acetylene (C 2 H 2 ). A separation system is needed to purify the H 2 from the PPA stream before it is recycled back to the Sabatier reactor. Two sub-scale electrochemical H 2 separation systems, developed by Skyre, Incorporated, were delivered to NASA for evaluation. Complimentary of the previous submittal, ICES-2023-260, this paper reports a summation of Phase I and Phase II testing and evaluation of the C 2 H 2 removal systems as well as lessons learned.

Plasma Pyrolysis Assembly↗

Algorithmic aspects of transient heat transfer problems in structures

It is noted that the application of finite element or finite difference techniques to the solution of transient heat transfer problems in structures often results in a stiff system of ordinary differential equations. Such systems are usually handled most efficiently by implicit integration techniques which require the solution of large and sparse systems of algebraic equations. The assembly and solution of these systems using the incomplete Cholesky conjugate gradient algorithm is examined. Several examples are used to demonstrate the advantage of the algorithm over other techniques.

Haftka, R. T.↗

Electrochemical Cell for Obtaining Oxygen from Carbon Dioxide Atmospheres

To support human life on the Martian surface, an electrochemical device will be required to obtain oxygen from the carbon dioxide rich atmosphere. The electrolyte employed in such a device must be constructed from extremely thin, dense membranes to efficiently acquire the oxygen necessary to support life. A forming process used industrially in the production of multilayer capacitors and electronic substrates was adapted to form the thin membranes required. The process, known as the tape casting, involves the suspension consisting of solvents and binders. The suspension is passed under a blade, resulting in the production of ceramic membranes between 0.1 and 0.5 mm thick. Once fired, the stabilized zirconia membranes were assembled into the cell design by employing a zirconium phosphate solution as the sealing agent. The resulting ceramic-to-ceramic seals were found to be structurally sound and gas-tight. Furthermore, by using a zirconia-based solution to assemble the cell, the problem of a thermal expansion mismatch was alleviated. By adopting an industrial forming process to produce thin membranes, an electrochemical cell for obtaining oxygen from carbon dioxide was produced. The proposed cell design is unique in that it does not require a complicated manifold system for separating the various gases present in this process, nor does it require a series of complex electrical connections. Thus, the device can reliably obtain the vital oxygen supply from the toxic carbon dioxide atmosphere.

Hooker, Matthew↗

Cascade aerodynamic gust response including steady loading effects

To predict the unsteady convected gust aerodynamic response of a cascade comprised of arbitrary thick and cambered aerofoils in an incompressible, inviscid, flow field, a complete first-order model is formulated. The flow is analyzed by considering a periodic flow channel. The velocity potential is separated into steady and unsteady harmonic components, each described by a Laplace equation. The strong dependence of the unsteady aerodynamics on the steady effects of aerofoil and cascade geometry and incidence angle is manifested in the coupling of the unsteady and steady flow fields through the unsteady boundary conditions. Analytical solutions in individual grid elements of a body-fitted computational grid are then determined, with the complete solution obtained by assembly of these local solutions. The validity and capabilities of this model and solution technique are then demonstrated by analyzing the steady and unsteady aerodynamics of both theoretical and experimental cascade configurations.

Chiang, Hsiao-Wei D.↗

Heat Treatment of Friction Stir Welded 7X50 Aluminum

A method for treating alloy before and after friction stir welding, the method comprising the following steps. First solution heat treating a multiplicity of aluminum-zinc alloy engineered components for a first time period at a first temperature. First air cooling the components in ambient air at room temperatwe until the components are cooled to room temperature. Friction stir welding the components to form an assembly. Second solution heat treating the assembly for a second time period at a second temperature. Additional steps and embodiments are considered.

George E Petter↗

Hierarchial implicit dynamic least-square solution algorithm

This paper develops an implicit type transient solution strategy which possesses hierarchial levels of application. In particular, due to the manner of formulation, stiffness updating, assembly inversion, solution constraint, as well as iteration are all performed at a localized level. The level of iterative calculations depends on the type of hierarchial partitioning employed, namely degree of freedom, nodal, elemental, material/nonlinear group, substructural, and so on. Since the iterative solution process and application of constraints are applied at a local level, the resulting so-called hierarchial implicit solution algorithm possesses very stable and efficient numerical properties and is highly storage efficient. To demonstrate the scheme, the results of several benchmark examples are presented. These enable comparisons with the Newton-Raphson solved implicit transient solution method. Overall the comparisons illustrate the superior stability and efficiency of the hierarchial scheme.

Padovan, J.↗

A Model for Macromolecular Crystallization

Macromolecular crystallization is a complex process. involving a system which typically has 5 or more components (macromolecule, water, buffer + counter ion, and precipitant). Whereas small molecules have only several well defined contacts in the crystal lattice, macromolecules generally have 10's or even 100's of contacts between molecules. These can range from hydrogen bonds (direct or water-mediated), through van der Waals, hydrophobic, salt bridges, and ion-mediated contacts. The latter interactions are stronger and require some specificity in the molecular alignment, while the others are weaker, more prevalent, and more promiscuous, i.e., can often be readily broken and reformed between other sites. Formation of a consistent, ordered, 3D structure may be impossible in the absence of any or presence of too many strong interactions. Further complicating the process is the inherent structural asymmetry of monomeric single chain macromolecules. The process of crystal nucleation and growth involves the ordered assembly of growth units into a defined 3D lattice. We suggest that for many macromolecules, particularly those that are monomeric, this involves a preliminary solution-phase assembly process into a growth unit having some symmetry prior to addition to the lattice, recapitulating the initial stages of the nucleation process. If this model is correct then fluids and crystal growth models assuming a strictly monodisperse nutrient solution need to be revised. Experimental evidence, based upon face growth rate, AFM, and fluorescence energy transfer data, for a postulated model of the nucleation of tetragonal lysozyme crystals and how it transitions into crystal growth will be presented.

Pusey, Marc L.↗

A Model for Tetragonal Lysozyme Crystal Nucleation and Growth

Macromolecular crystallization is a complex process, involving a system that typically has 5 or more components (macromolecule, water, buffer + counter ion, and precipitant). Whereas small molecules have only a few contacts in the crystal lattice, macromolecules generally have 10's or even 100's of contacts between molecules. These can range from hydrogen bonds (direct or water-mediated), through van der Waals, hydrophobic, salt bridges, and ion-mediated contacts. The latter interactions are stronger and require some specificity in the molecular alignment, while the others are weaker, more prevalent, and more promiscuous, i.e., can be readily broken and reformed between other sites. Formation of a consistent, ordered, 3D structure may be difficult or impossible in the absence of any or presence of too many strong interactions. Further complicating the process is the inherent structural asymmetry of monomeric (single chain) macromolecules. The process of crystal nucleation and growth involves the ordered assembly of growth units into a defined 3D lattice. We suggest that for many macromolecules, particularly those that are monomeric, this involves a preliminary solution-phase assembly process into a growth unit having some symmetry prior to addition to the lattice, recapitulating the initial stages of the nucleation process. If this model is correct then fluids and crystal growth models assuming a strictly monodisperse nutrient solution need to be revised. This model has been developed from experimental evidence based upon face growth rate, AFM, and fluorescence energy transfer data for the nucleation and growth of tetragonal lysozyme crystals.

Pusey, Marc L.↗

Operations considerations in Space Station Freedom assembly

The importance of planning the on-orbit operations inherent in the Space Station Freedom assembly sequence is discussed. Any solution to the assembly puzzle requires the simultaneous satisfaction of many diverse constraints, including: on-orbit assembly operations, NSTS (National Space Transportation System) payload bay constraints, NSTS performance capabilities, and provision of the requisite functionality for each on-orbit configuration. Because operations are in the critical path SSFP (Space Station Freedom Program) has chosen to carefully assess assembly operations as each launch manifest is developed and evaluated.

Doering, Stephen C.↗

On the development of hierarchical solution strategies for nonlinear finite element formulations

This paper develops a hierarchical type solution scheme which can handle the field equations associated with nonlinear finite element simulations. The overall procedure possesses various levels of application namely degree of freedom, nodal, elemental, substructural as well as global. In particular iteration, updating, assembly and solution control occurs at the various hierarchical levels. Due to the manner of formulation, the degree of matrix inversion depends on the size of the various hierarchical partitioned groups. In this context, degree of freedom partitioning requires no inversion. To benchmark the overall scheme, the results of several numerical examples are presented.

Padovan, J.↗

AFM Studies of Salt Concentration Effects on the (110) Surface Structure of Tetragonal Lysozyme Crystals

Previous high resolution AFM studies of the (110) surface of tetragonal chicken egg white lysozyme crystals had shown that only one of two possible molecular surfaces is present, those constituting the completed 43 helices. These suggested that the crystal growth process was by the solution-phase assembly of the growth units, which then attach to the surface. However, the best fit for the imaged surfaces, vs. those predicted based upon the bulk crystallographic coordinates, were obtained when the packing about the 43 helices was "tightened up", while maintaining the underlying crystallographic unit cell spacing. This results in a widening of the gap between adjacent helices, and the top- most layer(s) may no longer be in contact. We postulated that the tightened packing about the helices is a result of the high salt concentrations in the bulk solution, used to crystallize the protein, driving hydrophobic interactions. Once the crystal surface is sufficiently buried by subsequent growth layers the ratio of salt to protein molecules decreases and the helices relax to their bulk crystallographic coordinates. The crystal surface helix structure is thus a reflection of the solution structure, and the tightness of the packing about the 43 helices would be a function of the bulk salt concentration. AFM images of the (110) surface of tetragonal lysozyme crystals grown under low (2%) and high (5%) NaCl concentrations reveal differences in the packing about the 43 helices consistent with the above proposal.

Pusey, Marc Lee↗

Solution-Phase Processes of Macromolecular Crystallization

We have proposed, for the tetragonal form of chicken egg lysozyme, that solution phase assembly processes are needed to form the growth units for crystal nucleation and growth. The starting point for the self-association process is the monomeric protein, and the final crystallographic symmetry is defined by the initial dimerization interactions of the monomers and subsequent n-mers formed, which in turn are a function of the crystallization conditions. It has been suggested that multimeric proteins generally incorporate the underlying multimers symmetry into the final crystallographic symmetry. We posed the question of what happens to a protein that is known to grow as an n-mer when it is placed in solution conditions where it is monomeric. The trypsin-treated, or cut, form of the protein canavalin (CCAN) has been shown to nucleate and grow crystals as a trimer from neutral to slightly acidic solutions. Under these conditions the solution is composed almost wholly of trimers. The insoluble protein can be readily dissolved by weakly basic solution, which results in a solution that is monomeric. There are three possible outcomes to an attempt at crystallization of the protein under monomeric (high pH) conditions: 1) we will obtain the same crystals as under trimer conditions, but at different protein concentrations governed by the self association equilibria; 2) we will obtain crystals having a different symmetry, based upon a monomeric growth unit; 3) we will not obtain crystals. Obtaining the first result would be indicative that the solution-phase self-association process is critical to the crystal nucleation and growth process. The second result would be less clear, as it may also reflect a pH-dependent shift in the trimer-trimer molecular interactions. The third result, particularly for experiments in the transition pH's between trimeric and monomeric CCAN, would indicate that the monomer does not crystallize, and that solution phase self association is not part of the crystal nucleation and growth path. Results are presented for crystallization experiments of CCAN over the pH 6.8 to 9.6 range.

Pusey, Marc L.↗