Ordered Nanostructures Made Using Chaperonin Polypeptides

A recently invented method of fabricating periodic or otherwise ordered nanostructures involves the use of chaperonin polypeptides. The method is intended to serve as a potentially superior and less expensive alternative to conventional lithographic methods for use in the patterning steps of the fabrication of diverse objects characterized by features of the order of nanometers. Typical examples of such objects include arrays of quantum dots that would serve as the functional building blocks of future advanced electronic and photonic devices. A chaperonin is a double-ring protein structure having a molecular weight of about 60 plus or minus 5 kilodaltons. In nature, chaperonins are ubiquitous, essential, subcellular structures. Each natural chaperonin molecule comprises 14, 16, or 18 protein subunits, arranged as two stacked rings approximately 16 to 18 nm tall by approximately 15 to 17 nm wide, the exact dimensions depending on the biological species in which it originates. The natural role of chaperonins is unknown, but they are believed to aid in the correct folding of other proteins, by enclosing unfolded proteins and preventing nonspecific aggregation during assembly. What makes chaperonins useful for the purpose of the present method is that under the proper conditions, chaperonin rings assemble themselves into higher-order structures. This method exploits such higher-order structures to define nanoscale devices. The higher-order structures are tailored partly by choice of chemical and physical conditions for assembly and partly by using chaperonins that have been mutated. The mutations are made by established biochemical techniques. The assembly of chaperonin polypeptides into such structures as rings, tubes, filaments, and sheets (two-dimensional crystals) can be regulated chemically. Rings, tubes, and filaments of some chaperonin polypeptides can, for example, function as nano vessels if they are able to absorb, retain, protect, and release gases or chemical reagents, including reagents of medical or pharmaceutical interest. Chemical reagents can be bound in, or released from, such structures under suitable controlled conditions. In an example of a contemplated application, a two-dimensional crystal of chaperonin polypeptides would be formed on a surface of an inorganic substrate and used to form a planar array of nanoparticles or quantum dots. Through genetic engineering of the organisms used to manufacture the chaperonins, specific sites on the chaperonin molecules and, thus, on the two-dimensional crystals can be chemically modified to react in a specific manner so as to favor the deposition of the material of the desired nanoparticles or quantum dots. A mutation that introduces a cysteine residue at the desired sites on a chaperonin of Sulfolobus shibatae was used to form planar arrays of gold nanoparticles (see figure)

Astrobiological potential of Venus atmosphere chemical anomalies and other unexplained cloud properties

Long-standing unexplained Venus atmosphere observations and chemical anomalies point to unknown chemistry but also leave room for the possibility of life. The unexplained observations include several gases out of thermodynamic equilibrium (e.g., tens of ppm O2, the possible presence of PH3 and NH3, SO2 and H2O vertical abundance profiles), an unknown composition of large, lower cloud particles, and the “unknown absorber(s).” Here we first review relevant properties of the venusian atmosphere and then describe the atmospheric chemical anomalies and how they motivate future astrobiology missions to Venus

Ladakh: Diverse, high-altitude extreme environments for off-earth analogue and astrobiology research

This paper highlights unique sites in Ladakh, India, investigated during our 2016 multidisciplinary pathfinding expedition to the region. We summarize our scientific findings and the site's potential to support science exploration, testing of new technologies and science protocols within the framework of astrobiology research. Ladakh has several accessible, diverse, pristine and extreme environments at very high altitudes (3000-5700 m above sea level). These sites include glacial passes, sand dunes, hot springs and saline lake shorelines with periglacial features. We report geological observations and environmental characteristics (of astrobiological significance) along with the development of regolith-landform maps for cold high passes. The effects of the diurnal water cycle on salt deliquescence were studied using the ExoMars Mission instrument mockup: HabitAbility: Brines, Irradiance and Temperature (HABIT). It recorded the existence of an interaction between the diurnal water cycle in the atmosphere and salts in the soil (which can serve as habitable liquid water reservoirs). Life detection assays were also tested to establish the best protocols for biomass measurements in brines, periglacial ice-mud and permafrost melt water environments in the Tso-Kar region. This campaign helped confirm the relevance of clays and brines as interest targets of research on Mars for biomarker preservation and life detection.The team would like to express its gratitude to BirbalSahni Institute of Palaeosciences, Department of Science and Technology,Office of Chief Wildlife Warden of Ladakh, Government of India for helpingarrange the requisite clearances and permits for the conducted work. Projectmentoring and guidance provided by Spaceward Bound members at NASAAmes Research Center. Financial and logistics support provided by TataMotors Ltd, Inspired Journeys Co, Pearl Travels Ltd and NationalGeographic Traveller India. Website and IT support provided by the BlueMarble Space Institute of Science. Audio-video documentation support pro-vided by Astroproject India and The H

Inhibition Studies of Soybean and Human 15-Lipoxygenases with Long-Chain Alkenyl Sulfate Substrates †

Lipoxygenases are currently potential targets for therapies against asthma, artherosceloris, and cancer. Recently, inhibition studies on both soybean (SLO) and human lipoxygenase (15-HLO) revealed the presence of an allosteric site that binds both substrate, linoleic acid, and inhibitors; oleic acid (OA) and oleyl sulfate (OS). OS (K(D) approximately 0.6 microM) is a approximately 30-fold more potent inhibitor than OA (K(D) approximately 20 microM) due to the increased ionic strength of the sulfate moiety. To further investigate the role of the sulfate moiety on lipoxygenase function, SLO and 15-HLO were assayed against several fatty sulfate substrates (linoleyl sulfate (LS), cis-11,14-eicosadienoyl sulfate, and arachidonyl sulfate). The results demonstrate that SLO catalyzes all three fatty sulfate substrates and is not inhibited, indicating a binding selectivity of LS for the catalytic site and OS for the allosteric site. The 15-HLO, however, manifests parabolic inhibition kinetics with increasing substrate concentration, and it is irreversibly inhibited by these fatty sulfate substrates at high concentrations. The inhibition can be stopped, however, by the addition of detergent to the fatty sulfate mixture prior to the addition of 15-HLO. These results, combined with the modeling of the kinetic data, indicate that the inhibition of 15-HLO is due to a substrate aggregate. These substrate aggregates, however, do not inhibit SLO and could present a novel mode of inhibition for 15-HLO

Oleyl Sulfate Reveals Allosteric Inhibition of Soybean Lipoxygenase-1 and Human 15-Lipoxygenase †

Inhibition of lipoxygenase (LO) is currently an important goal of biomedical research due to its critical role in asthma, atherosclerosis, and cancer regulation. Steady-state kinetic data indicate that oleic acid (OA) is a simple competitive inhibitor for soybean lipoxygenase; however, kinetic isotope effect (KIE) data suggest a more complicated inhibitory mechanism. To investigate the inhibitory effects of fatty acids on lipoxygenase more thoroughly, we have synthesized a novel inhibitor to lipoxygenase, (Z)-9-octadecenyl sulfate (oleyl sulfate, OS), which imparts kinetic properties that are inconsistent with simple competitive inhibition for both SLO-1 and 15-HLO. The KIE exhibits a hyperbolic rise with addition of OS, indicating the formation of a catalytically active ternary complex with K(D) values of 0.6 +/- 0.2 and 0.4 +/- 0.05 microM for SLO-1 and 15-HLO, respectively. The steady-state kinetics show that SLO-1 proceeds through a hyperbolic mixed-type inhibition pathway, where OS binding (K(i) = 0.7 +/- 0.3 microM) causes an approximate 4-fold increase in the K(m)(app) (alpha = 4.6 +/- 0.5) and a decrease in the k(cat) by approximately 15% (beta = 0.85 +/- 0.1). 15-HLO also exhibits a hyperbolic saturation of k(cat)/K(m) consistent with the observed rise in its KIE. Taken together, these findings indicate the presence of an allosteric site in both SLO-1 and 15-HLO and suggest broad implications regarding the inhibition of LO and the treatment of LO-related diseases

The CO2 profile and analytical model for the Pioneer Venus Large Probe neutral mass spectrometer

We present a significantly updated CO2 altitude profile for Venus (64.2–0.9 km) and provide support for a potential deep lower atmospheric haze of particles (≤17 km). We extracted this information by developing a new analytical model for mass spectra obtained by the Pioneer Venus Large Probe (PVLP) Neutral Mass Spectrometer (LNMS). Our model accounts for changes in LNMS configuration and output during descent and enables the disentanglement of isobaric species via a data fitting routine that adjusts for mass-dependent changes in peak shape. The model yields CO2 in units of density (kg m−3), isotope ratios for 13C/12C and 18O/16O, and 14 measures of CO2 density across 55.4–0.9 km, which represents the most complete altitude profile for CO2 at ≤60 km to date. The CO2 density profile is also consistent with the pressure, temperature, and volumetric gas measurements from the PVLP and VeNeRa spacecraft. Nominal and low-noise operations for the LNMS mass analyzer are supported by the behaviors (e.g., ionization yields, fragmentation yields, and peak shapes) of several internal standards (e.g., CH3+, CH4+, 40Ar+, 136Xe2+, and 136Xe+), which were tracked across the descent. Lastly, our review of the CO2 profile and LNMS spectra reveals hitherto unreported partial and rapidly clearing clogs of the inlet in the lower atmosphere, along with several ensuing data spikes at multiple masses. Together, these observations suggest that atmospheric intake was impacted by particles at ≤17 km and that rapid particle degradation at the inlet yielded a temporary influx of mass signals into the LNMS

Tryptophan 500 and Arginine 707 Define Product and Substrate Active Site Binding in Soybean Lipoxygenase-1 †

ABSTRACT: There is much debate whether the fatty acid substrate of lipoxygenase binds "carboxylate-end first" or "methyl-end first" in the active site of soybean lipoxygenase-1 (sLO-1). To address this issue, we investigated the sLO-1 mutants Trp500Leu, Trp500Phe, Lys260Leu, and Arg707Leu with steadystate and stopped-flow kinetics. Our data indicate that the substrates (linoleic acid (LA), arachidonic acid (AA)), and the products (13-(S)-hydroperoxy-9,11-(Z,E)-octadecadienoic acid (HPOD) and 15-(S)-hydroperoxyeicosatetraeonic acid (15-(S)-HPETE)) interact with the aromatic residue Trp500 (possibly π-π interaction) and with the positively charged amino acid residue Arg707 (charge-charge interaction). Residue Lys260 of soybean lipoxygenase-1 had little effect on either the activation or steady-state kinetics, indicating that both the substrates and products bind "carboxylate-end first" with sLO-1 and not "methylend first" as has been proposed for human 15-lipoxygenase. Lipoxygenases (LO) 1 catalyze the peroxidation of dienecontaining fatty acids and belong to a class of non-heme iron metalloenzymes found in both plants and mammals (1-3). Mammalian lipoxygenases serve vital roles in the biosynthesis of lipoxins and leukotrienes, which are critical signaling molecules (4, 5). There are three major mammalian isozymes, 5-LO, 12-LO, and 15-LO, which oxygenate arachidonic acid (AA) at specific carbon centers (C5, C12, and C15, respectively) (6). These isozymes of human lipoxygenase have been shown to be involved in several human diseases: asthma (7) and prostate cancer (8) for human 5-LO (5-hLO), immune disorders (9) and breast cancer (10, 11) for human 12-LO (12-hLO), and atherosclerosis (12) and colorectal cancer (13) for human 15-LO (15-hLO). To develop effective therapeutic agents against these diseases, an intimate knowledge of their active sites is needed so that specific inhibitors of a particular lipoxygenase isozyme can be designed. Sloane and co-workers made significant progress in this regard when they converted reticulocyte 15-hLO-1 into a "12-hLO" by increasing the active site volume; they proposed that the substrate sat deeper in the active site, with the hydrophobic methyl end inserted first (14). This hypothesis was supported by site-directed mutagenesis investigations of Gan et al., which suggested that Phe414 of 15-hLO-1 π-π-stacked with the C11-C12 double bond of the substrate and that the positively charged residue Arg402 interacted with the negatively charged carboxylate of the substrate (15). Because Arg402 is located close to the surface of 15-hLO-1, this study supported a "methyl-end first" binding of the substrate. In addition, mutagenesis experiments on Phe353 and Ile593 of rabbit 15-LO (15-rLO) also supported the hypothesis that the size and shape of the active site defined the specificity and were consistent with a "methyl-end first" binding for mammalian Nevertheless, when the rabbit 15-LO (15-rLO) structure was compared with soybean lipoxygenase-1 (sLO-1), a debate concerning the manner in which the substrate bound to the active site developed. Amzel and co-workers proposed that, to obtain the known stereochemistry of the product, only a "carboxylate-end first" insertion of linoleic acid (LA) into the active site was plausible for sLO-

Tryptophan 500 and Arginine 707 Define Product and Substrate Active Site Binding in Soybean Lipoxygenase-1 †

There is much debate whether the fatty acid substrate of lipoxygenase binds "carboxylate-end first" or "methyl-end first" in the active site of soybean lipoxygenase-1 (sLO-1). To address this issue, we investigated the sLO-1 mutants Trp500Leu, Trp500Phe, Lys260Leu, and Arg707Leu with steady-state and stopped-flow kinetics. Our data indicate that the substrates (linoleic acid (LA), arachidonic acid (AA)), and the products (13-(S)-hydroperoxy-9,11-(Z,E)-octadecadienoic acid (HPOD) and 15-(S)-hydroperoxyeicosatetraeonic acid (15-(S)-HPETE)) interact with the aromatic residue Trp500 (possibly pi-pi interaction) and with the positively charged amino acid residue Arg707 (charge-charge interaction). Residue Lys260 of soybean lipoxygenase-1 had little effect on either the activation or steady-state kinetics, indicating that both the substrates and products bind "carboxylate-end first" with sLO-1 and not "methyl-end first" as has been proposed for human 15-lipoxygenase