Engineering Papers⌕ Search

SEARCH · Engineering Papers

Results for “AMINO ACID”

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 325 records · Page 18
All sourcesNASA NTRSDOE OSTI
DOE OSTI2020

Amino acid interacting network in the receptor-binding domain of SARS-CoV-2 spike protein

The relation between amino acid (AA) sequence and biologically active conformation controls the process of polypeptide chains folding into three-dimensional (3d) protein structures. The recent achievements in the resolution achieved in cryo-electron microscopy coupled with improvements in computational methodologies have accelerated the analysis of structures and properties of proteins. However, the detailed interaction between AAs has not been fully elucidated. Herein, we present a de novo method to evaluate inter-amino acid interactions based on the concept of accurately evaluating the amino acid bond pairs (AABP). The results obtained enabled the identification of complex 3d long-range interconnected AA interacting network in proteins. The method is applied to the receptor binding domain (RBD) of the SARS-CoV-2 spike protein. We show that although nearest-neighbor AAs in the primary sequence have large AABP, other nonlocal AAs make substantial contribution to AABP with significant participation of both covalent and hydrogen bonding. Detailed analysis of AABP in RBD reveals the pivotal role they play in sequence conservation with profound implications on residue mutations and for therapeutic drug design. This approach could be easily applied to many other proteins of biomedical interest in life sciences.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
NASA NTRS1989

Effects of stretching and disuse on amino acids in muscles of rat hind limbs

The effects of disuse and passive stretch on the concentrations of amino acids and ammonia in the unloaded soleus muscle was investigated in hindquarter-suspended (for six days by casting one foot in dorsiflexion) tail-casted rats. For a comparison with the condition of unloading, amino acids and ammonia were also measured in shortened extensor digitorum longus in the same casted limb and in denervated leg muscles. The results obtained suggest that passive stretch diminishes some of the characteristic alterations of amino acid concentrations due to unloading. This effect of stretch is considered to be due to the maintenance of muscle tension.

Jaspers, Stephen R.↗
DOE OSTI2025

The Photochemistry of Amino Acids Produced on the Polar Cryovolcanic Regions of Titan

The cryovolcanic regions of Titan offer transient opportunities for prebiotic molecules to exist in water–ammonia solutions on the surface of the Saturnian moon. The upcoming NASA’s Dragonfly mission will search for high nitrogen concentrations and amino acids on Titan’s equatorial terrains. Cryovolcanic features, however, are most common on the polar regions. To mitigate the distance, bubble bursting may encapsulate the prebiotic molecules into aerosols, which Titan’s Hadley circulation would subsequently transport to the equator. Here we investigate whether alanine and glycine survive this meridional journey. Despite the unconstrained meridional wind velocities, our results suggest that the amino acids can survive the transport through the mesosphere. Dragonfly may find cryo-volcanogenic amino acids on Titan’s equator. Further, the interaction between the two amino acids increased 10-fold the photodegradation rate of glycine. We justify it based on changes in the environment polarity.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2018

Blocking amino acid transporter Os AAP 3 improves grain yield by promoting outgrowth buds and increasing tiller number in rice

Summary Amino acid transporters ( AAT s) play indispensable roles in nutrient allocation during plant development. In this study, we demonstrated that inhibiting expression of the rice amino acid transporter Os AAP 3 increased grain yield due to a formation of larger numbers of tillers as a result of increased bud outgrowth. Elevated expression of Os AAP 3 in transgenic plants resulted in significantly higher amino acid concentrations of Lys, Arg, His, Asp, Ala, Gln, Gly, Thr and Tyr, and inhibited bud outgrowth and rice tillering. However, RNA i of Os AAP 3 decreased significantly Arg, Lys, Asp and Thr concentrations to a small extent, and thus promoted bud outgrowth, increased significantly tiller numbers and effective panicle numbers per plant, and further enhanced significantly grain yield and nitrogen use efficiency ( NUE ). The promoter sequences of Os AAP 3 showed some divergence between Japonica and Indica rice, and expression of the gene was higher in Japonica , which produced fewer tillers than Indica . We generated knockout lines of Os AAP 3 on Japonica ZH 11 and KY 131 using CRISPR technology and found that grain yield could be increased significantly. These results suggest that manipulation of Os AAP 3 expression could be used to increase grain yield in rice.

Lu, Kai↗
NASA NTRS1998

A search for extraterrestrial amino acids in carbonaceous Antarctic micrometeorites

Antarctic micrometeorites (AMMs) in the 100-400 microns size range are the dominant mass fraction of extraterrestrial material accreted by the Earth today. A high performance liquid chromatography (HPLC) based technique exploited at the limits of sensitivity has been used to search for the extraterrestrial amino acids alpha-aminoisobutyric acid (AIB) and isovaline in AMMs. Five samples, each containing about 30 to 35 grains, were analyzed. All the samples possess a terrestrial amino acid component, indicated by the excess of the L-enantiomers of common protein amino acids. In only one sample (A91) was AIB found to be present at a level significantly above the background blanks. The concentration of AIB (approximately 280 ppm), and the AIB/isovaline ratio (> or = 10), in this sample are both much higher than in CM chondrites. The apparently large variation in the AIB concentrations of the samples suggests that AIB may be concentrated in rare subset of micrometeorites. Because the AIB/isovaline ratio in sample A91 is much larger than in CM chondrites, the synthesis of amino acids in the micrometeorite parent bodies might have involved a different process requiring an HCN-rich environment, such as that found in comets. If the present day characteristics of the meteorite and micrometeorite fluxes can be extrapolated back in time, then the flux of large carbonaceous micrometeorites could have contributed to the inventory of prebiotic molecules on the early Earth.

Non-NASA Center↗
DOE OSTI2014

A single amino acid gates the KcsA channel

Highlights: • pH-dependent gating of the KcsA channel is regulated by the CPD. • E146 is the most essential amino acid for pH sensing by the KcsA. • The protonated-mimicking mutant, E146Q, is constitutively open independent of pH. • Minimal rearrangement of the CPD is sufficient for opening of the KcsA. - Abstract: The KcsA channel is a proton-activated potassium channel. We have previously shown that the cytoplasmic domain (CPD) acts as a pH-sensor, and the charged states of certain negatively charged amino acids in the CPD play an important role in regulating the pH-dependent gating. Here, we demonstrate the KcsA channel is constitutively open independent of pH upon mutating E146 to a neutrally charged amino acid. In addition, we found that rearrangement of the CPD following this mutation was not large. Our results indicate that minimal rearrangement of the CPD, particularly around E146, is sufficient for opening of the KcsA channel.

60 APPLIED LIFE SCIENCES↗
NASA NTRS1983

On the reported optical activity of amino acids in the Murchison meteorite

It is shown that the explanation of terrestrial contamination of the Murchison meteorite is consistent with the analysis of extracts from the meteorite reported by Engel and Nagy (EN) (1982) and is much more probable than their suggestion that the excess of L-enantiomers for several protein amino acids is due to asymmetric synthesis or decomposition. The low abundance of serine and threonine reported by EN may be due to their decomposition during the derivatization procedure, and the absence of methionine, tyrosine, and phenylalanine can be attributed to various causes. The amount of contamination in EN's extracts are estimated from a mass balance of the amino acid enantiomers, and it is found that the amino acids in the HCl could be due entirely to contamination while in the water extract the amount of contamination ranges from about 40 to 97 percent, depending on the amino acid. The argument that contaminants were preferentially extracted by EN's procedure cannot account for the failure to detect methionine, tyrosine, and phenylalanine.

Bada, J. L.↗
NASA NTRS1999

AV3V lesions attenuate the cardiovascular responses produced by blood-borne excitatory amino acid analogs

Systemic injections of the excitatory amino acid (EAA) analogs, kainic acid (KA) and N-methyl-D-aspartate (NMDA), produce a pressor response in conscious rats that is caused by a centrally mediated activation of sympathetic drive and the release of arginine vasopressin (AVP). This study tested the hypothesis that the tissue surrounding the anteroventral part of the third ventricle (AV3V) plays a role in the expression of the pressor responses produced by systemically injected EAA analogs. Specifically, we examined whether prior electrolytic ablation of the AV3V region would affect the pressor responses to KA and NMDA (1 mg/kg iv) in conscious rats. The KA-induced pressor response was smaller in AV3V-lesioned than in sham-lesioned rats (11 +/- 2 vs. 29 +/- 2 mmHg; P < 0.05). After ganglion blockade, KA produced a pressor response in sham-lesioned but not AV3V-lesioned rats (+27 +/- 3 vs. +1 +/- 2 mmHg; P < 0.05). The KA-induced pressor response in ganglion-blocked sham-lesioned rats was abolished by a vasopressin V1-receptor antagonist. Similar results were obtained with NMDA. The pressor response to AVP (10 ng/kg iv) was slightly smaller in AV3V-lesioned than in sham-lesioned ganglion-blocked rats (45 +/- 3 vs. 57 +/- 4 mmHg; P < 0.05). This study demonstrates that the pressor responses to systemically injected EAA analogs are smaller in AV3V-lesioned rats. The EAA analogs may produce pressor responses by stimulation of EAA receptors in the AV3V region, or the AV3V region may play an important role in the expression of these responses.

Non-NASA Center↗
DOE OSTI2024

Biosynthesis of Strained Amino Acids by a PLP‐Dependent Enzyme through Cryptic Halogenation

Abstract Amino acids (AAs) are modular building blocks which nature uses to synthesize both macromolecules, such as proteins, and small molecule natural products, such as alkaloids and non‐ribosomal peptides. While the 20 main proteinogenic AAs display relatively limited side chain diversity, a wide range of non‐canonical amino acids (ncAAs) exist that are not used by the ribosome for protein synthesis, but contain a broad array of structural features and functional groups. In this communication, we report the discovery of the biosynthetic pathway for a new ncAA, pazamine, which contains a cyclopropane ring formed in two steps. In the first step, a chlorine is added onto the C 4 position of lysine by a radical halogenase, PazA. The cyclopropane ring is then formed in the next step by a pyridoxal‐5′‐phosphate‐dependent enzyme, PazB, via an S N 2‐like attack at C 4 to eliminate chloride. Genetic studies of this pathway in the native host, Pseudomonas azotoformans , show that pazamine potentially inhibits ethylene biosynthesis in growing plants based on alterations in the root phenotype of Arabidopsis thaliana seedlings. We further show that PazB can be utilized to make an alternative cyclobutane‐containing AA. These discoveries may lead to advances in biocatalytic production of specialty chemicals and agricultural biotechnology.

Sosa, Max B.↗
NASA NTRS1972

GLC of amino acids - A survey of contamination.

Analyses of biological substances and geochemical samples, of both terrestrial and extraterrestrial origin, are reported for amino acids at the 1-10 nanogram per gram level achieved by gas-liquid and ion-exchange chromatographic methods. These studies have shown that nanogram quantities of amino acids, present in water extracts of geochemical samples or in other samples of low amino acid concentration, can be successfully determined only if the researcher is well aware of the possible sources of contamination.

Rash, J. J.↗
DOE OSTI2019

Simulation of carbon dioxide absorption by amino acids in two-phase batch and bubble column reactors

The absorption of carbon dioxide (CO 2 ) is a critical process in many practical applications. The use of amino acid solutions as absorption solvents has the potential to reduce the amount of energy required by the regeneration process. The goal of this research project is to develop dynamic models to simulate CO 2 absorption by using amino acid solutions as absorption solvents. A reaction scheme is introduced to represent the chemical reactions between the amino acid and CO 2 . Two reaction models, for a two-phase batch reactor and a bubble column, based upon transient mass and energy balances for the chemical species found in CO 2 gas-liquid absorption are presented. Computer codes have been written to implement the proposed models. Simulation results are presented and discussed. The proposed models can be used to optimize and control CO 2 absorption in practical applications.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
NASA NTRS2021

Extraterrestrial Hydroxy Amino Acids in CM and CR Carbonaceous Chondrites

7 The abundances, distributions, and enantiomeric ratios of a family of three- and four- 8 9 10 carbon hydroxy amino acids (HAAs) were investigated in extracts of five CM and four 11 12 13 CR carbonaceous chondrites by gas chromatography-mass spectrometry (GC-MS) 14 15 16 analyses. Hydroxy amino acids were detected in both the acid hydrolysates of the hot 17 18 19 water extracts and the 6 M HCl extracts of all the CM and CR chondrites analyzed 20 21 22 here with total hot water and HCl extractable HAA concentrations ranging from 6.94 23 24 25 to 315 nmol per gram. The HAA analyses performed in this study revealed: 1) the 26 27 28 combined (hot water + HCl) extracts of CR2 chondrites contained greater abundances 29 30 31 of -HAAs than that of CM2 chondrites and 2) the combined extracts of CM and CR 32 33 34 chondrites contained roughly similar abundances of β- and γ-HAAs. Application of the 35 36 37 new GC-MS method developed here resulted in the first successful chromatographic 38 39 40 resolution of the enantiomers of an -dialkyl HAA, D,L--methylserine, in 41 42 43 carbonaceous chondrite extracts. Meteoritic -methylserine was found to be mostly 44 45 46 racemic within error and did not show L-enantiomeric excesses correlating with the 47 48 49 degree of aqueous alteration, a phenomenon observed in meteoritic isovaline, another 50 51 52 -dialkyl amino acid. The HAAs identified in CM and CR chondrite extracts could have 53 54 55 been produced during parent body alteration from the Strecker cyanohydrin reaction 56 57 58 (for -HAAs) and an ammonia-involved formose-like reaction (for β-, and γ-HAAs).

Amino acid(s), CM carbonaceous chondrite < Meteori↗
DOE OSTI2014

Amino acid modified Ni catalyst exhibits reversible H 2 oxidation/production over a broad pH range at elevated temperatures

Hydrogenases interconvert H 2 and protons at high rates and with high energy efficiencies, providing inspiration for the development of molecular catalysts. Studies designed to determine how the protein scaffold can influence a catalytically active site has led to the synthesis of amino acid derivatives, [Ni(P Cy 2 N Amino acid 2) 2 ] 2+ (CyAA), of [Ni(P R 2 N R' 2 ) 2 ] 2+ complexes. It is shown that these CyAA derivatives can catalyze fully reversible H 2 production/oxidation, a feature reminiscent of enzymes. The reversibility is achieved in acidic aqueous solutions, 0.25% H 2 /Ar, and elevated temperatures (tested up to 348 K) for the glycine (CyGly), arginine (CyArg), and arginine methyl ester (CyArgOMe) derivatives. As expected for a reversible process, the activity is dependent upon H 2 and proton concentration. CyArg is significantly faster in both directions than the other two derivatives (~300 s -1 H 2 production and 20 s -1 H 2 oxidation; pH = 1, 348 K). The significantly slower rates for CyArgOMe (35 s -1 production and 7 s -1 oxidation) compared to CyArg suggests an important role for the COOH group during catalysis. That CyArg is faster than CyGly (3 s -1 production and 4 s -1 oxidation under the same conditions) suggests that the additional structural features imparted by the guanidinium groups facilitate fast and reversible H 2 addition/release. Furthermore, these observations demonstrate that appended, outer coordination sphere amino acids work in synergy with the active site and can play an equally important role for synthetic molecular electrocatalysts as the protein scaffold does for redox active enzymes.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2015

Discovery of a novel amino acid racemase through exploration of natural variation in Arabidopsis thaliana

Plants produce diverse low-molecular-weight compounds via specialized metabolism. Discovery of the pathways underlying production of these metabolites is an important challenge for harnessing the huge chemical diversity and catalytic potential in the plant kingdom for human uses, but this effort is often encumbered by the necessity to initially identify compounds of interest or purify a catalyst involved in their synthesis. Here, as an alternative approach, we have performed untargeted metabolite profiling and genome-wide association analysis on 440 natural accessions of Arabidopsis thaliana . This approach allowed us to establish genetic linkages between metabolites and genes. Investigation of one of the metabolite-gene associations led to the identification of N-malonyl-D-allo-isoleucine, and the discovery of a novel amino acid racemase involved in its biosynthesis. This finding provides, to our knowledge, the first functional characterization of a eukaryotic member of a large and widely conserved phenazine biosynthesis protein PhzF-like protein family. Unlike most of known eukaryotic amino acid racemases, the newly discovered enzyme does not require pyridoxal 5'-phosphate for its activity. In conclusion, this study thus identifies a new d-amino acid racemase gene family and advances our knowledge of plant d-amino acid metabolism that is currently largely unexplored. As a result, it also demonstrates that exploitation of natural metabolic variation by integrating metabolomics with genome-wide association is a powerful approach for functional genomics study of specialized metabolism.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRS1995

The stability of amino acids at submarine hydrothermal vent temperatures

It has been postulated that amino acid stability at hydrothermal vent temperatures is controlled by a metastable thermodynamic equilibrium rather than by kinetics. Experiments reported here demonstrate that the amino acids are irreversibly destroyed by heating at 240 C and that quasi-equilibrium calculations give misleading descriptions of the experimental observations. Equilibrium thermodynamic calculations are not applicable to organic compounds under high-temperature submarine vent conditions.

Bada, Jeffrey L.↗