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At least 217 records · Page 12

Crystal structure of an Okazaki fragment at 2-A resolution

In DNA replication, Okazaki fragments are formed as double-stranded intermediates during synthesis of the lagging strand. They are composed of the growing DNA strand primed by RNA and the template strand. The DNA oligonucleotide d(GGGTATACGC) and the chimeric RNA-DNA oligonucleotide r(GCG)d(TATACCC) were combined to form a synthetic Okazaki fragment and its three-dimensional structure was determined by x-ray crystallography. The fragment adopts an overall A-type conformation with 11 residues per turn. Although the base-pair geometry, particularly in the central TATA part, is distorted, there is no evidence for a transition from the A- to the B-type conformation at the junction between RNA.DNA hybrid and DNA duplex. The RNA trimer may, therefore, lock the complete fragment in an A-type conformation.

Non-NASA Center↗

A chemical route to the formation of water in circumstellar envelopes around carbon-rich asymptotic branch stars: Fischer-Tropsch catalysis

Fischer-Tropsch catalysis has been suggested as a means of driving hydrocarbon chemistry in oxygen rich regions such as the protosolar nebula. In addition to producing hydrocarbons, Fischer-Tropsch catalysis also produces water, and it is therefore possible that such processes could account for the recent observations of water in the circumstellar envelope of asymptotic giant branch star IRC +10216.

astrochemistry molecular data giant branch stars↗

The electron excited ultraviolet spectrum of HD : cross sections and transition probabilities

We have analyzed the high-resolution ultraviolet (UV) emission spectrum of molecular deuterium hydride (HD) excited by electron impact at 100 eV under optically thin, single-scattering experimental conditions. The high-resolution spectrum (FWHM=160 mA) spans the wavelength range from 900 to 1650 A and contains the two Rydberg series of HD: (sup 1)Sigma(sub u)(sup +)1s(sigma), np(si n=2, 3, 4) --> X(sup 1)Sigma(sub g)(sup +) and (sup 1)Pi(sub u)(sup +)1s(sigma), np(pi)(C,D,D',D'', n=2, 3, 4, 5) -->X(sup 1)Sigma(sub g)(sup +). A model spectrum of HD, based on newly calculated tra rovibrational coupling for the strongest band systems, B (sup 1)Sigma(sub u)(sup +)-X(sup 1)Sigma(sub g)(sup +),B'(sup 1)Sigma(sub g)(sup +)-X(sup 1)Sigma(sub g)(sup +),C(sup 1)Pi(sub u)-X(sup 1)Sigm sections for direct excitation at 100 eV of the B (sup 1)Sigma(sub u)(sup +), B' (sup 1)Sigma(sub u)(sup +), C(sup 1)Pi(sub u), and D(sup 1)Pi(sub u) states were derived from a model analysis of the state. The absolute cross section values for excitation to the B (sup 1)Sigma(sub u)(sup +), B' (sup 1)Sigma(sub u)(sup +), C(sup 1)Pi(sub u), and D(sup 1)Pi(sub u) states were found to be (2.57+/-0. and (0.17+/-0.04)x10(exp -17) sq cm, respectively. We have also determined the dissociative excitation cross sections at 100 eV for the emission of Ly(alpha) at 1216 A and Ly(Beta) at 1025 A lines, which are (7.98+/-1.12)x10(exp -18) and (0.40+/-0.10)x10(exp -18) sq cm, respectively. The summed excitation function of the closely spaced pair of lines, H Ly(alpha) and D Ly(Beta), resulting from excitation of HD, has been measured from the threshold to 800 eV and is analytically modeled with a semiempirical relation. The model cross sections are in good agreement with the corrected Ly(alpha) cross sections of Mohlmann et al. up to 2 keV. Based on measurements of H, D (2s) production cross section values by Mohlmann et al., the H, D (n=2) cross section is estimated to be 1.6 x 10(exp -17) sq cm at 100 eV.

molecular data↗

High-Accuracy Quartic Force Field Calculations for the Spectroscopic Constants and Vibrational Frequencies of 1(exp 1)A' l-C3H(-): A Possible Link to Lines Observed in the Horsehead Nebula PDR

It has been shown that rotational lines observed in the Horsehead nebula photon-dominated-region (PDR) are probably not caused by l-C3H+, as was originally suggested. In the search for viable alternative candidate carriers, quartic force fields are employed here to provide highly accurate rotational constants, as well as fundamental vibrational frequencies, for another candidate carrier: 1 (sup 1)A' C3H(−). The ab initio computed spectroscopic constants provided in this work are, compared to those necessary to define the observed lines, as accurate as the computed spectroscopic constants for many of the known interstellar anions. Additionally, the computed D-eff for C3H(−) is three times closer to the D deduced from the observed Horsehead nebula lines relative to l-C3H(+). As a result, 1 (sup 1)A' C3H(−). is a more viable candidate for these observed rotational transitions and would be the seventh confirmed interstellar anion detected within the past decade and the first C(sub n)H(−) molecular anion with an odd n.

Horsehead nebula↗

Feasibility of Rayleigh Scattering Flow Diagnostics in the National Transonic Facility

Laser-based Rayleigh light scattering (RLS) was performed in the National Transonic Facility (NTF) at NASA Langley Research Center. The goal was to determine if the free-stream flow undergoes clustering (early stage of condensation from gas to liquid) or remains in a pure diatomic molecular phase. Data indicate that clusters are not observable down to levels of 10% of the total light scatter for a variety of total pressures at one N2 cryogenic-mode total temperature (Tt = -50 F = 227 K) and one air-mode temperature (Tt = +130 F = 327 K). Thus RLS appears viable as a qualitative or quantitative diagnostic for flow density in NTF in the future. Particles are distinguished from optically unresolvable clusters because they are much larger and individually resolvable in the laser beam image with Mie scattering. The same RLS apparatus was also used, without modification, to visualize naturally occurring particles entrained in the flow for both cryogenic and air-modes. Estimates of the free-stream particle flux are presented, which may be important for interpretation of laminar-to-turbulent boundary-layer transition studies. 1

Herring, Gregory C.↗

Interstellar Ices and Radiation-Induced Oxidations of Alcohols

Infrared spectra of ices containing alcohols that are known or potential interstellar molecules are examined before and after irradiation with 1 MeV protons at ~20 K. The low-temperature oxidation (hydrogen loss) of six alcohols is followed, and conclusions are drawn based on the results. The formation of reaction products is discussed in terms of the literature on the radiation chemistry of alcohols and a systematic variation in their structures. The results from these new laboratory measurements are then applied to a recent study of propargyl alcohol. Connections are drawn between known interstellar molecules, and several new reaction products in interstellar ices are predicted.

astrochemistry – infrared: ISM – ISM: molecule↗

Interstellar Ices and Radiation-induced Oxidations of Alcohols

Infrared spectra of ices containing alcohols that are known or potential interstellar molecules are examined before and after irradiation with 1 MeV protons at ~20 K. The low-temperature oxidation (hydrogen loss) of six alcohols is followed, and conclusions are drawn based on the results. The formation of reaction products is discussed in terms of the literature on the radiation chemistry of alcohols and a systematic variation in their structures. The results from these new laboratory measurements are then applied to a recent study of propargyl alcohol. Connections are drawn between known interstellar molecules, and several new reaction products in interstellar ices are predicted.

astrochemistry – infrared: ISM – ISM: molecule↗

A Hybrid Line List for CH4 and Hot Methane Continuum

Molecular line lists (a catalogue of transition frequencies and line strengths) are important for modelling absorption and emission processes in atmospheres of different astronomical objects, such as cool stars and exoplanets. In order to be applicable for high temperatures, line lists for molecules like methane must contain billions of transitions, which makes their direct (line-by-line) application in radiative transfer calculations impracticable. Here we suggest a new, hybrid line list format to mitigate this problem, based on the idea of temperature-dependent absorption continuum. Methods. The line list is partitioned into a large set of relatively weak lines and a small set of important, stronger lines. The weaker lines are then used either to construct a temperature-dependent (but pressure-independent) set of intensity cross sections or are blended into a greatly reduced set of super-lines. The strong lines are kept in the form of temperature independent Einstein A coefficients. Results. A line list for methane is constructed as a combination of 17 million strong absorption lines relative to the reference absorption spectra and a background methane continuum in two temperature-dependent forms, of cross sections and super-lines. This approach eases the use of large high temperature line lists significantly as the computationally expensive calculation of pressure dependent profiles only need to be performed for a relatively small number of lines. Both the line list and cross sections were generated using a new 34 billion methane line list (34 to10), which extends the 10to10 line list to higher temperatures (up to 2000 K). The new hybrid scheme can be applied to any large line lists containing billions of transitions. We recommend to use super-lines generated on a high resolution grid based on resolving power R = 1,000,000 to model the molecular continuum as a more flexible alternative to the temperature dependent cross sections.

Line Profiles↗

N2 Chemistry in Interstellar and Planetary Ices: Radiation-Driven Oxidation

As part of our work on nitrogen-rich ices, the IR spectra and band strengths used in a recent paper to identify and quantify radiation-induced changes in an N2+H2O ice near 15 K are examined, along with reports of (i) a chemical tracer for N2+H2O ices, (ii) a new IR feature of solid N2, and (iii) a striking 15N isotopic enrichment. Problems are found for each IR band strength used and for each of the three claims made, to the extent that none are supported by the results presented to date. In contrast, new work presented here, combined with several older investigations, strongly supports the formation of di- and triatomic nitrogen oxides in irradiated N2-rich ices. Observations and trends in the chemistry of N2-rich icy solids are described, and conclusions are drawn. A considerable amount of material from previous chemical studies of N2-rich systems, spanning more than a century, is brought together for the rst time and used to examine the chemistry of N2-rich ices in extraterrestrial environments. Needs are identied and suggestions made for future studies of N2-rich interstellar and planetary ice analogs.

astrobiology↗

Infrared Spectra and Interstellar Sulfur: New Laboratory Results for H2S and Four Malodorous Thiol Ices

New infrared spectra are presented for H2S and four other sulfur-containing compounds, all thiols, at 10–140 K to aid in the study of interstellar and solar system ices. Infrared spectral changes on warming H2S and each thiol are described with an emphasis on the S–H stretching vibration at 2550–2525 cm(exp -1) (λ=3.92–3.96 μm) as it is in a relatively unobscured part of the infrared spectra of interstellar and planetary ices. Infrared positions and band strengths for each thiol’s S–H and C–H stretching vibrations are reported, along with the S–H band strength of H2S. Two band strengths of near-infrared features of CH3SH are included. Results for these compounds are compared, and some areas of agreement and disagreement with the literature are described.

Astrobiology↗

N2 Chemistry in Interstellar and Planetary Ices: Radiation-Driven Oxidation

As part of our work on nitrogen-rich ices, the IR spectra and band strengths used in a recent paper to identify and quantify radiation-induced changes in an N2+H2O ice near 15 K are examined, along with reports of (i) a chemical tracer for N2+H2O ices, (ii) a new IR feature of solid N2, and (iii) a striking 15N isotopic enrichment. Problems are found for each IR band strength used and for each of the three claims made, to the extent that none are supported by the results presented to date. In contrast, new work presented here, combined with several older investigations, strongly supports the formation of di- and triatomic nitrogen oxides in irradiated N2-rich ices. Observations and trends in the chemistry of N2-rich icy solids are described, and conclusions are drawn. A considerable amount of material from previous chemical studies of N2-rich systems, spanning more than a century, is brought together for the first time and used to examine the chemistry of N2-rich ices in extraterrestrial environments. Needs are identified and suggestions made for future studies of N2-rich interstellar and planetary ice analogs

astrobiology – astrochemistry – infrared: ISM – IS↗

Infrared Spectra and Interstellar Sulfur: New Laboratory Results for H2S and Four Malodorous Thiol Ices

New infrared spectra are presented for H2S and four other sulfur-containing compounds, all thiols, at 10–140 K to aid in the study of interstellar and solar system ices. Infrared spectral changes on warming H2S and each thiol are described with an emphasis on the S–H stretching vibration at 2550–2525 cm(exp −1) (λ = 3.92–3.96 μm) as it is in a relatively unobscured part of the infrared spectra of interstellar and planetary ices. Infrared positions and band strengths for each thiol’s S–H and C–H stretching vibrations are reported, along with the S–H band strength of H2S. Two band strengths of near-infrared features of CH3SH are included. Results for these compounds are compared, and some areas of agreement and disagreement with the literature are described.

Astrochemistry; infrared: ISM; ISM: molecules; mol↗

Infrared Spectra and Interstellar Sulfur - New Laboratory Results for H2S and Four Malodorous Thiol Ices

New infrared spectra are presented for H2S and four other sulfur-containing compounds, all thiols, at 10–140 K to aid in the study of interstellar and solar system ices. Infrared spectral changes on warming H2S and each thiol are described with an emphasis on the S–H stretching vibration at 2550–2525 cm(exp −1) (λ = 3.92–3.96 μm) as it is in a relatively unobscured part of the infrared spectra of interstellar and planetary ices. Infrared positions and band strengths for each thiol’s S–H and C–H stretching vibrations are reported, along with the S–H band strength of H2S. Two band strengths of near-infrared features of CH3SH are included. Results for these compounds are compared, and some areas of agreement and disagreement with the literature are described.

Astrochemistry; infrared: ISM; ISM: molecules; mol↗

GAuche-Ethyl Alcohol: Laboratory Assignments and Interstellar Identification

Ethyl alcohol (ethanol) is known to possess a pair of closely-spaced excited torsional substates (gauche +, gauche -) at an energy of approximately 57 K above the ground (trans) torsional substrate. We report an extended analysis of some gauch- - gauch+ Q branch (delta J=0) transitions witha three-substrate fixed frame axis method (FFAM) Hamilton.

ISM↗