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  • 1
    Electronic Resource
    Electronic Resource
    College Park, Md. : American Institute of Physics (AIP)
    The Journal of Chemical Physics 113 (2000), S. 3026-3033 
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: The A 1Σ+–X 1Σ+ emission spectrum of BaO excited in a Broida-type oven was revisited using a Fourier transform spectrometer. Chemiluminescence was observed from excited BaO molecules generated from the Ba+N2O reaction, and 82 vibrational bands of 138BaO were measured in the range 8900–21 000 cm−1 at a resolution of 0.04 cm−1. Vibrational levels were observed up to v″=20 of the ground state and up to v′=11 for the excited state. In addition, 72 bands from the minor isotopomers 137BaO, 136BaO, and 135BaO were detected with v″ up to 14 and v′ up to 4. Over 15 500 lines with J″ up to 119 were measured with a precision of about 0.005 cm−1, which shows that the Broida oven is an excellent source for high-resolution emission spectroscopy. Our main goal here is to obtain an optimum set of molecular constants for the ground electronic state. To avoid complications due to the well-known perturbations for vA′≥1 of the A 1Σ+ state, our unified combined-isotopomer analysis used a novel combination of a Dunham expansion description of the ground state with independent band-constants for data involving A-state level vA′=0, while fitting to an independent term value for each observed A-state vA′≥1 vibration–rotation level of each isotopomer. Significantly improved ground-state constants and A-state vA′=0 band constants are obtained, together with term values for some 1372 higher-v′ A-state levels. © 2000 American Institute of Physics.
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  • 2
    Electronic Resource
    Electronic Resource
    College Park, Md. : American Institute of Physics (AIP)
    The Journal of Chemical Physics 111 (1999), S. 1884-1889 
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: A strong, uniform electric field was used to achieve brute force orientation of supersonically cooled cyanogen bromide. Laser-induced fluorescence of the CN fragment from photolysis of the sample at 213 nm was detected. A 20% enhancement in signal was observed when the dissociation laser was polarized parallel, rather than perpendicular, to the orientation field. This indicates the dominance of a transition dipole moment parallel to the permanent dipole of the molecule. However, the degree of enhancement falls well below that predicted for a pure parallel transition at a rotational temperature of 1.5 K. Thus, evidence of contribution from a perpendicular transition is seen. Based on quantitative analysis, the direction of the effective transition dipole, and thereby the amount of contribution from a transition dipole perpendicular to the permanent dipole of the molecule, can be determined. Using this method, approximately 33% perpendicular character was found in the dissociation process of BrCN at 213 nm. © 1999 American Institute of Physics.
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  • 3
    Electronic Resource
    Electronic Resource
    College Park, Md. : American Institute of Physics (AIP)
    The Journal of Chemical Physics 110 (1999), S. 11779-11788 
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: Orientation of pyrimidine in a strong electric field was measured using resonantly enhanced multiphoton ionization (REMPI) and laser induced fluorescence (LIF). The ion and fluorescence yields showed preference for perpendicular excitation relative to the orientation field, implying a perpendicular relationship between the permanent dipole and the transition dipole. Calculation results using a linear variation method reproduced the observed spectral features, overall transition intensity, and polarization preference of the excitation laser. The permanent dipole of the S1 state of pyrimidine was thereby determined to be +0.6 Debye. Measurements of polarization preferences in photoexcitation, i.e., linear dichroism, provide a direct approach for determination of transition dipole moments. A general theory of deriving directions of transition dipoles relative to permanent dipoles based on this type of measurement/calculation was also developed. In addition, we report observations of complex relaxation dynamics of pyrimidine in an electric field. At 50 kV/cm, the overall fluorescence yield was quenched to a quarter of its value under field free conditions. The spectral intensity distribution exhibited dependence on the delay time of the ionization laser in the REMPI experiment. Qualitative assignments of the REMPI spectra revealed that the loss of signal strength with delay time was primarily from levels containing high rotational angular momenta. Elimination of contributions from levels with M′≥3 in the calculation was sufficient to reproduce experimental spectra recorded with a delay time of 200 ns. These observations and interpretations agree with previous reports on photophysical properties of pyrimidine, including relaxation and quenching in a magnetic field. © 1999 American Institute of Physics.
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  • 4
    Electronic Resource
    Electronic Resource
    College Park, Md. : American Institute of Physics (AIP)
    The Journal of Chemical Physics 109 (1998), S. 4782-4790 
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: Using a pulsed supersonic slit nozzle, the nonfluorescing π*←n transition of pyridazine was investigated. The degenerate four wave mixing (DFWM) spectra showed numerous vibrational bands over a 1200 cm−1 region. Most of these bands were parallel transitions with a strong Q branch and weaker but observable P and R branches. Based on our previous model [H. Li and W. Kong, J. Chem. Phys. 107, 3774 (1997)], these transitions were simulated with success. The polarization dependence of the rotational branching ratios suggested that primary contributions to the DFWM signal were from large spaced gratings formed by ground state molecules. The lack of contributions from excited state gratings and small spaced gratings was attributed to the fast internal conversion process on the S1 surface of pyridazine (0.3–3 ns), the wash-out time due to movements of the sample in a molecular beam, and the duration time of the excitation laser (7 ns). Two vibrational bands showed unexpected enhancement in the P or R branch, but for each band, one adjustment factor was sufficient to reproduce the spectra recorded under all different polarization combinations. Perturbations were observable from the rotationally resolved spectra, however in most cases, rotational progressions did not seem to be affected by the perturbation in terms of both line positions and intensities. A more detailed analysis of the supersonically cooled spectra, together with data from a room temperature gas cell and ab initio calculations, will be necessary to completely interpret the spectroscopy of pyridazine. This paper demonstrates that with the increased sensitivity achievable through a slit nozzle, DFWM is an effective technique for detailed spectroscopic studies, particularly for nonfluorescing species. © 1998 American Institute of Physics.
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  • 5
    Electronic Resource
    Electronic Resource
    College Park, Md. : American Institute of Physics (AIP)
    The Journal of Chemical Physics 107 (1997), S. 3774-3781 
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: Degenerate four wave mixing (DFWM) in supersonically cooled pyrazine was investigated using different polarization combinations of the three input beams. A common feature of these spectra was the strong Q branch, stronger than the corresponding spectra for a single photon process. The ratios for all the rotational branches demonstrated strong dependence on the polarization combination. The YYXX combination showed similar intensities for the P and R branches, while the YXYX combination had a much stronger R branch. The Q branch, relative to the P branch, was the strongest for the YYYY combination. All experiments probed for the same electronic transition with the same Hönl–London factor; therefore the variation in the rotational branching ratios was solely an effect of the polarization combinations. This polarization dependence of DFWM can be traced back to the selectivity in the magnetic quantum number for this multiphoton process. Based on the theoretical framework by Williams et al. [J. Chem. Phys. 101, 1072 (1994)], these spectra were simulated successfully. The calculations and analysis of the experimental conditions revealed that among the twelve gratings included in the original theory, only three of them had observable contributions to the experimental spectra, i.e., the gratings formed through the ground-state molecules via the two forward beams. The other nine gratings either were washed out or decayed in the collision free environment (supersonic expansion) under an excitation pulse of 7 ns. This argument was further confirmed by another experiment using a time delay between the backward probe beam and the two forward beams. The spectra recorded with a 15 ns delay in the probe beam (longer than the pulse duration of each input beam) were similar to those without delays. These results implied that (1) the backward beam did not participate in the grating formation process even when it arrived at the interaction region simultaneously with the two forward beams. (2) Relaxation from any of the three contributing gratings was not observable. (3) The fast intersystem crossing, known to exist in pyrazine, had no effect on the grating formation and relaxation processes. Although complex in nature, degenerate four wave mixing offers versatility in experimental arrangements, providing both dynamics and spectroscopy information. © 1997 American Institute of Physics.
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  • 6
    Electronic Resource
    Electronic Resource
    College Park, Md. : American Institute of Physics (AIP)
    The Journal of Chemical Physics 106 (1997), S. 5943-5946 
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: The photodissociation of acetyl and propionyl radicals at 248 and 266 nm has been studied by time-resolved Fourier transform infrared spectroscopy. A vibrationally excited product CO(v≤8) was observed in the emission spectra. The vibrational temperatures of the nascent CO products were about 7400 K for the acetyl radical and 6930 K for the propionyl radical. The vibrational energy partitioning of the CO fragments fits a soft impulsive model. © 1997 American Institute of Physics.
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  • 7
    Publication Date: 2018-01-02
    Description: HIV-1 reverse transcriptase (RT) contains both DNA polymerase and RNase H activities to convert the viral genomic RNA to dsDNA in infected host cells. Here we report the 2.65-Å resolution structure of HIV-1 RT engaging in cleaving RNA in an RNA/DNA hybrid. A preferred substrate sequence is absolutely required to enable the RNA/DNA hybrid to adopt the distorted conformation needed to interact properly with the RNase H active site in RT. Substituting two nucleotides 4 bp upstream from the cleavage site results in scissile-phosphate displacement by 4 Å. We also have determined the structure of HIV-1 RT complexed with an RNase H-resistant polypurine tract sequence, which adopts a rigid structure and is accommodated outside of the nuclease active site. Based on this newly gained structural information and a virtual drug screen, we have identified an inhibitor specific for the viral RNase H but not for its cellular homologs.
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
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  • 8
    Publication Date: 2020-02-05
    Description: Ten-eleven translocation (TET) family enzymes (TET1, TET2, and TET3) oxidize 5-methylcytosine (5mC) and generate 5-hydroxymethylcytosine (5hmC) marks on the genome. Each TET protein also interacts with specific binding partners and partly plays their role independent of catalytic activity. Although the basic role of TET enzymes is well established now, the molecular mechanism and specific contribution of their catalytic and noncatalytic domains remain elusive. Here, by combining in silico and biochemical screening strategy, we have identified a small molecule compound, C35, as a first-in-class TET inhibitor that specifically blocks their catalytic activities. Using this inhibitor, we explored the enzymatic function of TET proteins during somatic cell reprogramming. Interestingly, we found that C35-mediated TET inactivation increased the efficiency of somatic cell programming without affecting TET complexes. Using high-throughput mRNA sequencing, we found that by targeting 5hmC repressive marks in the promoter regions, C35-mediated TET inhibition activates the transcription of the BMP-SMAD-ID signaling pathway, which may be responsible for promoting somatic cell reprogramming. These results suggest that C35 is an important tool for inducing somatic cell reprogramming, as well as for dissecting the other biological functions of TET enzymatic activities without affecting their other nonenzymatic roles.
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
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  • 9
    Publication Date: 2019-08-24
    Print ISSN: 1672-5182
    Electronic ISSN: 1993-5021
    Topics: Geosciences
    Published by Springer
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  • 10
    Publication Date: 1998-10-01
    Print ISSN: 1089-5639
    Electronic ISSN: 1520-5215
    Topics: Chemistry and Pharmacology , Physics
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