Search NASA⌕ Search

SEARCH · Search NASA

Results for “structural modification”

Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 415 records · Page 23
All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

Regulation of translation by ribosomal RNA pseudouridylation

Pseudouridine is enriched in ribosomal, spliceosomal, transfer, and messenger RNA and thus integral to the central dogma. The chemical basis for how pseudouridine affects the molecular apparatus such as ribosome, however, remains elusive owing to the lack of structures without this natural modification. Here, we studied the translation of a hypopseudouridylated ribosome initiated by the internal ribosome entry site (IRES) elements. We analyzed eight cryo–electron microscopy structures of the ribosome bound with the Taura syndrome virus IRES in multiple functional states. We found widespread loss of pseudouridine-mediated interactions through water and long-range base pairings. In the presence of the translocase, eukaryotic elongation factor 2, and guanosine 5'-triphosphate hydrolysis, the hypopseudouridylated ribosome favors a rare unconducive conformation for decoding that is partially recouped in the ribosome population that remains modified at the P-site uridine. The structural principles learned establish the link between functional defects and modification loss and are likely applicable to other pseudouridine-associated processes.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

Cryo-EM structures of DNA-free and DNA-bound BsaXI: architecture of a Type IIB restriction–modification enzyme

Abstract We have determined multiple cryogenic electron microscopy (cryo-EM) structures of the Type IIB restriction–modification enzyme BsaXI. Such enzymes cleave DNA on both sides of their recognition sequence and share features of Types I, II, and III restriction systems. BsaXI forms a heterotrimeric (RM)2S assemblage in the presence and absence of bound DNA. Two unique structural motifs—a multi-helical “knob” and a long antiparallel double-helical “paddle”—are involved in DNA binding and cleavage. Binding of the DNA target triggers a large conformational change from an ‘open’ to ‘closed’ configuration, resulting in a mixture of two different conformations with respect to the positioning of the S subunit and its target recognition domains on the enzyme’s bipartite DNA target site. Structure-guided mutagenesis studies implicated two clusters of residues in the RM subunit as being critical for DNA cleavage, both are located proximal to a DNA cleavage site. One corresponds to a canonical PD-(D/E)xK endonuclease site in the N-terminal endonuclease domain, while the other corresponds to residues clustered within the paddle motif (near to the C-terminal end of the RM subunit). This analysis facilitates a comparison of three potential mechanisms by which such enzymes cleave DNA on each side of the bound target.

Shen, Betty W.↗
DOE OSTI2024

Two-step electronic response to magnetic ordering in a van der Waals ferromagnet

The two-dimensional material Cr 2 ⁢Ge 2 ⁢Te 6 is a member of the class of insulating van der Waals (vdW) magnets. Here, using high resolution angle-resolved photoemission spectroscopy in a detailed temperature dependence study, we identify a clear response of the electronic structure to a dimensional crossover in the form of two distinct temperature scales marking onsets of modifications in the electronic structure. Specifically, we observe Te 𝑝-orbital-dominated bands to undergo changes at the Curie transition temperature 𝑇 𝐶 while the Cr 𝑑-orbital-dominated bands begin evolving at a higher temperature scale. Combined with neutron scattering, density functional theory calculations, and Monte Carlo simulations, we find that the electronic system can be consistently understood to respond sequentially to the distinct temperatures at which in-plane and out-of-plane spin correlations exceed a characteristic length scale. Finally, our findings reveal the sensitivity of the orbital-selective electronic structure for probing the dynamical evolution of local moment correlations in vdW insulating magnets.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2022

Defining the S-Glutathionylation Proteome by Biochemical and Mass Spectrometric Approaches

Protein S-glutathionylation (SSG) is a reversible post-translational modification (PTM) featuring the conjugation of glutathione to a protein cysteine thiol. SSG can alter protein structure, activity, subcellular localization, and interaction with small molecules and other proteins. Thus, it plays a critical role in redox signaling and regulation in various physiological activities and pathological events. In this review, we summarize current biochemical and analytical approaches for characterizing SSG at both the proteome level and at individual protein levels. To illustrate the mechanism underlying SSG-mediated redox regulation, we highlight recent examples of functional and structural consequences of SSG modifications. Finally, we discuss the analytical challenges in characterizing SSG and the thiol PTM landscape, future directions for understanding of the role of SSG in redox signaling and regulation and its interplay with other PTMs, and the potential role of computational approaches to accelerate functional discovery.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

PHOTO‐SENSITIVE LEAF ROLLING 1 encodes a polygalacturonase that modifies cell wall structure and drought tolerance in rice

Summary The biosynthesis and modification of cell wall composition and structure are controlled by hundreds of enzymes and have a direct consequence on plant growth and development. However, the majority of these enzymes has not been functionally characterised. Rice mutants with leaf‐rolling phenotypes were screened in a field. Phenotypic analysis under controlled conditions was performed for the selected mutant and the relevant gene was identified by map‐based cloning. Cell wall composition was analysed by glycome profiling assay. We identified a photo‐sensitive leaf rolling 1 ( psl1 ) mutant with ‘napping’ (midday depression of photosynthesis) phenotype and reduced growth. The PSL1 gene encodes a cell wall‐localised polygalacturonase (PG), a pectin‐degrading enzyme. psl1 with a 260‐bp deletion in its gene displayed leaf rolling in response to high light intensity and/or low humidity. Biochemical assays revealed PG activity of recombinant PSL1 protein. Significant modifications to cell wall composition in the psl1 mutant compared with the wild‐type plants were identified. Such modifications enhanced drought tolerance of the mutant plants by reducing water loss under osmotic stress and drought conditions. Taken together, PSL1 functions as a PG that modifies cell wall biosynthesis, plant development and drought tolerance in rice.

Zhang, Guangheng↗
DOE OSTI2021

In vivo pharmacokinetic enhancement of monomeric Fc and monovalent bispecific designs through structural guidance

In a biologic therapeutic landscape that requires versatility in targeting specificity, valency and half-life modulation, the monomeric Fc fusion platform holds exciting potential for the creation of a class of monovalent protein therapeutics that includes fusion proteins and bispecific targeting molecules. Here we report a structure-guided approach to engineer monomeric Fc molecules to adapt multiple versions of half-life extension modifications. Co-crystal structures of these monomeric Fc variants with Fc neonatal receptor (FcRn) shed light into the binding interactions that could serve as a guide for engineering the half-life of antibody Fc fragments. These engineered monomeric Fc molecules also enabled the generation of a novel monovalent bispecific molecular design, which translated the FcRn binding enhancement to improvement of in vivo serum half-life.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Binding of radionuclides and surrogate to 18-crown-6 ether by density functional theory

For this work, we use density functional theory to investigate the interactions of cerium, americium, and curium cations with crown ethers. Our calculations reveal that the modeled structure of cerium integrated within the crown ether is in good agreement with experimental data, with the negative binding energy indicating that capturing the cerium nitrates is thermodynamically favorable. Our results demonstrate that crown ethers can also bind americium and curium, providing insights into the potential applications of crown ether in radionuclide sequestration. Finally, we explore the impact of the skeleton modification of different crown ethers through by substitution of nitrogen atoms in the core of the crown ether for oxygen atoms and find that this structural modification significantly increases the radionuclide binding energies. These findings provide insights on the potential for the use of organic linkers such as crown ethers to address the urgent needs in radionuclide sequestration, separation and sensing.

36 MATERIALS SCIENCE↗
NASA NTRS2002

Modeling of InGaAsSb-Based Avalanche Photodetectors for 2-Micron Wavelengths

The main focus of this research is to study and evaluate the potential of InGaAsSb-AlGaAsSb based 2 micron avalanche photo-detectors. The photodetector contains a separate absorption and multiplication region (SAM) structure. The analysis has mainly been done to understand the electrical response characteristics of the devices existing at NASA, and to evaluate alternate structures proposed. Calculating the current flow for the existing detector structure, on the basis of its energy band diagram, is important. This analysis also helps to find shortcomings in the existing detector structure. It is shown that, unfortunately, the existing structure cannot lead to strong multiplication or voltage dependent gain. Two alternate structures are suggested, that could overcome the inherent flaws, and help achieve improved performance. These devices are obtained through modifications of the original structure, which include varying the doping levels, and changing the thicknesses of detector sub-regions. The results of our study are presented and discussed.

Joshi, Ravindra P.↗
NASA NTRS1991

Architecture, performance, and implementation of the tandem banyan fast packet switch

The authors propose a space-division fast packet switch architecture based on banyan interconnection networks, called the tandem banyan switching fabric. It consists of placing banyan networks in tandem, offering multiple paths from each input to each output, thus overcoming in a very simple way the effect of conflicts among packets (to which banyan networks are prone) and achieving output buffering. From a hardware implementation perspective, this architecture is simple in that it consists of several instances of only two VLSI chips, one implementing the banyan network and the other implementing the output buffer function. The basic structure and operation of the tandem banyan switching fabric are described, and its performance is discussed. The authors propose a modification to the basic structure which decreases the hardware complexity of the switch while maintaining its performance. An implementation of the banyan network using a high-performance BiCMOS sea-of-gates on 0.8-micron technology is reported.

Tobagi, Fouad A.↗
NASA NTRS1983

Reattaching turbulent shear layers with perturbed structure

The reattachment of a fully turbulent, two-dimensional shear layer downstream of a backward-facing step has been studied experimentally. The work examines the effect of modifications in shear layer structure upstream of reattachment. A series of experiments were conducted in a low-speed wind tunnel using specialized instrumentation suited to the highly turbulent, reversing flow near reattachment. Accurate characterization of the time-mean features of the reattaching flows was possible. Assuming linear scaling normalized on distance from reattachment, distributions of the normalized pressure coefficients, the time-averaged skin friction coefficient, and the forward flow fraction appear universal for two-dimensional reattachment, independent of initial conditions and steep height, for given duct geometry (area ratio) and for high step height Reynolds numbers. The results suggest universal flow structure in the reattachment zone.

Westphal, R. V.↗
NASA NTRS1972

Adaptation of NASTRAN to an integrated system of structural design analysis

Efforts to integrate NASTRAN into a complete structural analysis system for use by large airframe design projects are discussed. NASTRAN was implemented as a major finite element structural analysis program to determine the static and dynamic behavior of complete airframes, as well as structural components. This requires modifications and additions to NASTRAN, to communicate with an existing system, and to provide facilities needed to work within the integrated structural analysis. For this purpose, several special DMAP modules were developed and introduced into the CALAC version of the NASTRAN system.

Haggenmacher, G. W.↗
NASA NTRS1979

The importance of surface recombination and energy-bandgap narrowing in p-n-junction silicon solar cells

Experimental data demonstrating the sensitivity of open-circuit voltage to front-surface conditions are presented for a variety of p-n-junction silicon solar cells. Analytical models accounting for the data are defined and supported by additional experiments. The models and the data imply that a) surface recombination significantly limits the open-circuit voltage (and the short-circuit current) of typical silicon cells, and b) energy-bandgap narrowing is important in the manifestation of these limitations. The models suggest modifications in both the structural design and the fabrication processing of the cells that would result in substantial improvements in cell performance. The benefits of one such modification - the addition of a thin thermal silicon-dioxide layer on the front surface - are indicated experimentally.

Fossum, J. G.↗
NASA NTRS1992

Experiments on the enhancement of compressible mixing via streamwise vorticity. I - Optical measurements

The present study was initiated in an attempt to increase the compressible mixing rate of a supersonic jet injected into a co-flowing supersonic stream by adding streamwise vorticity to the injected flow. This flowfield was imaged using the planar laser scattering technique, and mixing rates were derived entirely from captured images. The results of this image analysis indicate that increases in mixing rate of up to 60 percent are possible through the addition of streamwise vorticity. Furthermore, the degree of mixing enhancement appears to be dependent on the amount of swirl added. Analysis of the instantaneous turbulent structure suggests that this increase in mixing is due to a modification of the largest turbulent structures in the mixing layer.

Naughton, J. W.↗
DOE OSTI2021

Excitation of fishbone-like mode in tokamaks due to bounce resonances of trapped thermal ions

When the drift kinetic effect of thermal ions is taken into account, a high-frequency fishbone-like mode (FLM) is found to be driven unstable by trapped thermal ions (TTIs) in tokamak plasmas, according to self-consistent magneto-hydrodynamic (MHD)-kinetic hybrid modeling utilizing the MARS-K code [Liu et al., Phys. Plasmas 15, 112503 (2008)] as well as an analytic theory. It is found that, similar to energetic particles, TTIs can also stabilize the internal kink mode, whereas the FLM is excited when the effective beta of TTIs exceeds a threshold value. The real frequency of the FLM is comparable to the bounce frequency of TTIs. The mode structure of the FLM can be significantly different from the conventional step-like function for the associated plasma radial displacement. This drift kinetic induced modification of the mode structure near the q = 1 surface is captured by non-perturbative MHD-kinetic hybrid computations with MARS-K. Furthermore, the FLM can only be triggered by TTIs at sufficiently high thermal temperatures. Both the FLM and the internal kink can be stabilized by sufficiently fast plasma toroidal rotation and parallel sound wave damping. These two conditions of high thermal temperature and (fast) flow stabilization, though making it challenging to observe the TTI-driven FLM in present day experiments, are favorable for the mode excitation in future reactor scale devices.

36 MATERIALS SCIENCE↗
NASA NTRS1981

Aluminum blade development for the Mod-OA 200-kilowatt wind turbine

The rotor blade configuration, fabrication methods, analyses, operating experience, design modifications, and cost are described. Each 60-ft.-(18.3-m-) long aluminum blade used current aircraft fixed wing and rotary wing design and fabrication technologies. Structural damage, repairs, and modifications that occurred during 6500 hours of operation are summarized.

Linscott, B. S.↗