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  • 1
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    Mapping of catalytic residues in the RNA polymerase active center (1996)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 1996-07-05
    Description: When the Mg2+ ion in the catalytic center of Escherichia coli RNA polymerase (RNAP) is replaced with Fe2+, hydroxyl radicals are generated. In the promoter complex, such radicals cleave template DNA near the transcription start site, whereas the beta' subunit is cleaved at a conserved motif NADFDGD (Asn-Ala-Asp-Phe-Asp-Gly-Asp). Substitution of the three aspartate residues with alanine creates a dominant lethal mutation. The mutant RNAP is catalytically inactive but can bind promoters and form an open complex. The mutant fails to support Fe2+-induced cleavage of DNA or protein. Thus, the NAD-FDGD motif is involved in chelation of the active center Mg2+.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Zaychikov, E -- Martin, E -- Denissova, L -- Kozlov, M -- Markovtsov, V -- Kashlev, M -- Heumann, H -- Nikiforov, V -- Goldfarb, A -- Mustaev, A -- New York, N.Y. -- Science. 1996 Jul 5;273(5271):107-9.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Limnological Institute, Russian Academy of Sciences, Irkutsk, Russia.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/8658176" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Sequence ; Aspartic Acid/metabolism ; Binding Sites ; DNA/metabolism ; DNA-Directed RNA Polymerases/*chemistry/genetics/*metabolism ; Dithiothreitol/pharmacology ; Electrophoresis, Polyacrylamide Gel ; Escherichia coli/*enzymology ; Ferrous Compounds/metabolism ; Hydroxyl Radical ; Magnesium/metabolism ; Molecular Sequence Data ; Mutagenesis ; Promoter Regions, Genetic
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 2
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    Isotopic evidence for open system processes within the Campanian Ignimbrite (Campi Flegrei–Italy) magma chamber (2009)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: New Sr and Nd isotope data for whole rocks, glasses and minerals are combined to reconstruct the nature and origin of mixing end-members of the 200 km3 trachytic to phonolitic Campanian Ignimbrite (Campi Flegrei, Italy) magmatic system. The least-evolved magmatic end-member shows equilibrium between host glass and the majority of the phenocrysts and is less radiogenic in Sr and Nd than the most-evolved magma. On the contrary, only the Fe-rich pyroxene from the most-evolved erupted magma is in equilibrium with the matrix glass, while all other minerals are in isotopic disequilibrium. These magmas mixed prior to and during the Campanian Ignimbrite eruption and minerals were freely exchanged between the magma batches. Combining the results of the geochemical investigations on magma end-members with geophysical and geological data, we develop the following scenario. In stage 1, a parental, less differentiated magma rose into the middle crust, and evolved through combined crustal assimilation and crystal fractionation. In stage 2, the differentiated magma rose to shallower depth, fed the pre-Campanian Ignimbrite activity and evolved by further open-system processes into the most-evolved and most-radiogenic Campanian Ignimbrite end-member magma. In stage 3, new trachytic magma, isotopically distinct from the pre-Campanian Ignimbrite magmas, rose from ca. 6 km to shallower depth, recharged the most-evolved pre-Campanian Ignimbrite magma chamber, and formed the large and stratified Campanian Ignimbrite magmatic system. During the course of the Campanian Ignimbrite eruption, the two layers were tapped separately and/or simultaneously, and gave rise to the range of chemical and isotopic values displayed by the Campanian Ignimbrite pumices, glasses and minerals.
    Description: Published
    Description: 285-300
    Description: 2.3. TTC - Laboratori di chimica e fisica delle rocce
    Description: 3.5. Geologia e storia dei vulcani ed evoluzione dei magmi
    Description: JCR Journal
    Description: reserved
    Keywords: Campanian Ignimbrite ; Radiogenic isotopes ; Mixing process ; 04. Solid Earth::04.08. Volcanology::04.08.03. Magmas ; 04. Solid Earth::04.08. Volcanology::04.08.05. Volcanic rocks
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: article
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  • 3
    Electronic Resource
    Electronic Resource
    NMR structure of the chimeric hybrid duplex r(gcaguggc)⋅r(gcca)d(CTGC) comprising the tRNA-DNA junction formed during initiation of HIV-1 reverse transcription (1999)
    Springer
    Journal of biomolecular NMR 13 (1999), S. 343-355 
    Details
    ISSN: 1573-5001
    Keywords: AIDS ; DYANA ; HIV-1 ; NMR structure ; ribonuclease H ; RNA-DNA hybrid ; torsion angle dynamics
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Chemistry and Pharmacology
    Notes: Abstract A high-quality NMR solution structure of the chimeric hybrid duplex r(gcaguggc)⋅r(gcca)d(CTGC) was determined using the program DYANA with its recently implemented new module FOUND, which performs exhaustive conformational grid searches for dinucleotides. To ensure conservative data interpretation, the use of 1H-1H lower distance limit constraints was avoided. The duplex comprises the tRNA–DNA junction formed during the initiation of HIV-1 reverse transcription. It forms an A-type double helix that exhibits distinct structural deviations from a standard A-conformation. In particular, the minor groove is remarkably narrow, and its width decreases from about 7.5 Å in the RNA/RNA stem to about 4.5 Å in the RNA/DNA segment. This is unexpected, since minor groove widths for A-RNA and RNA/DNA hybrid duplexes of ∼11 Å and ∼8.5 Å, respectively, were previously reported. The present, new structure supports that reverse transcriptase-associated RNaseH specificity is related primarily to conformational adaptability of the nucleic acid in 'induced-fit'-type interactions, rather than the minor groove width of a predominantly static nucleic acid duplex.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1023/A:1008350604637
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