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    Wyświetlanie 1-7 z 7
    Tytuł:
    Bacterial DNA repair genes and their eukaryotic homologues: 1. Mutations in genes involved in base excision repair (BER) and DNA-end processors and their implication in mutagenesis and human disease
    Autorzy:
    Krwawicz, Joanna
    Arczewska, Katarzyna
    Speina, Elzbieta
    Maciejewska, Agnieszka
    Grzesiuk, Elzbieta
    Powiązania:
    https://bibliotekanauki.pl/articles/1040919.pdf
    Data publikacji:
    2007
    Wydawca:
    Polskie Towarzystwo Biochemiczne
    Tematy:
    mutagenesis
    AP endonuclease
    SSBR
    DNA damage
    protein interaction
    BER
    DNA repair; glycosylase
    SSB
    Opis:
    Base excision repair (BER) pathway executed by a complex network of proteins is the major system responsible for the removal of damaged DNA bases and repair of DNA single strand breaks (SSBs) generated by environmental agents, such as certain cancer therapies, or arising spontaneously during cellular metabolism. Both modified DNA bases and SSBs with ends other than 3'-OH and 5'-P are repaired either by replacement of a single or of more nucleotides in the processes called short-patch BER (SP-BER) or long-patch BER (LP-BER), respectively. In contrast to Escherichia coli cells, in human ones, the two BER sub-pathways are operated by different sets of proteins. In this review the selection between SP- and LP-BER and mutations in BER and end-processors genes and their contribution to bacterial mutagenesis and human diseases are considered.
    Źródło:
    Acta Biochimica Polonica; 2007, 54, 3; 413-434
    0001-527X
    Pojawia się w:
    Acta Biochimica Polonica
    Dostawca treści:
    Biblioteka Nauki
    Artykuł
    Tytuł:
    Effects of distortions by A-tracts of promoter B-DNA spacer region on the kinetics of open complex formation by Escherichia coli RNA polymerase.
    Autorzy:
    Kolasa, Iwona
    Łoziński, Tomasz
    Wierzchowski, Kazimierz
    Powiązania:
    https://bibliotekanauki.pl/articles/1043363.pdf
    Data publikacji:
    2003
    Wydawca:
    Polskie Towarzystwo Biochemiczne
    Tematy:
    RNA polymerase-promoter interaction
    A-tract
    DNA bending
    kinetics of open complex formation
    promoter spacer region
    Escherichia coli RNA polymerase
    Opis:
    A-tracts in DNA due to their structural morphology distinctly different from the canonical B-DNA form play an important role in specific recognition of bacterial upstream promoter elements by the carboxyl terminal domain of RNA polymerase α subunit and, in turn, in the process of transcription initiation. They are only rarely found in the spacer promoter regions separating the -35 and -10 recognition hexamers. At present, the nature of the protein-DNA contacts formed between RNA polymerase and promoter DNA in transcription initiation can only be inferred from low resolution structural data and mutational and crosslinking experiments. To probe these contacts further, we constructed derivatives of a model Pa promoter bearing in the spacer region one or two An (n = 5 or 6) tracts, in phase with the DNA helical repeat, and studied the effects of thereby induced perturbation of promoter DNA structure on the kinetics of open complex (RPo) formation in vitro by Escherichia coli RNA polymerase. We found that the overall second-order rate constant ka of RPo formation, relative to that at the control promoter, was strongly reduced by one to two orders of magnitude only when the A-tracts were located in the nontemplate strand. A particularly strong 30-fold down effect on ka was exerted by nontemplate A-tracts in the -10 extended promoter region, where an involvement of nontemplate TG (-14, -15) sequence in a specific interaction with region 3 of σ-subunit is postulated. A-tracts in the latter location caused also 3-fold slower isomerization of the first closed transcription complex into the intermediate one that precedes formation of RPo, and led to two-fold faster dissociation of the latter. All these findings are discussed in relation to recent structural and kinetic models of RPo formation.
    Źródło:
    Acta Biochimica Polonica; 2003, 50, 4; 909-920
    0001-527X
    Pojawia się w:
    Acta Biochimica Polonica
    Dostawca treści:
    Biblioteka Nauki
    Artykuł
    Tytuł:
    Functionality versus strength - has functional selection taken place in the case of the ecdysteroid receptor response element?
    Autorzy:
    Grad, Iwona
    Kochman, Marian
    Ożyhar, Andrzej
    Powiązania:
    https://bibliotekanauki.pl/articles/1043745.pdf
    Data publikacji:
    2002
    Wydawca:
    Polskie Towarzystwo Biochemiczne
    Tematy:
    ultraspiracle
    nuclear receptor
    Drosophila
    protein-DNA interaction
    ecdysteroid receptor
    20-hydroxyecdysone
    Opis:
    Nuclear receptors are ligand-dependent transcription factors responsible for controlling differentiation, growth and development of higher eukaryotes. Three amino acids within the recognition α-helix of the DNA-binding domain of the nuclear receptors constitute the so-called "P-box" which determines response element specificity. In the ultraspiracle (Usp) protein, which together with EcR forms the heterodimeric ecdysone receptor, the P-box residues are E19, G20 and G23. Substitution of E19, the most characteristic amino acid for estrogen receptor-like P-boxes, with alanine showed that the mutation did not appreciably alter the affinity of the wild-type Usp DNA-binding domain (UspDBDWT) for a probe containing natural ecdysone response element (hsp27wt). Since in many cases E19 contacts a G/C base pair in position -4, which is absent in hsp27wt, we analysed the interaction of UspDBDWT, E19A and other P-box region mutants with the hsp27wt derivative which contains a G/C instead of an T/A base pair in position -4. UspDBDWT exhibited higher affinity for this element than for hsp27wt. Moreover, a different interaction pattern of P-box region mutants was also observed. Thus we conclude that the E19 residue of UspDBD is not involved in any hsp27wt sequence-discerning contacts. However, substitution of the hsp27wt T/A base pair in position -4 with G/C generates target sequence with distinct functional characteristics and possibly with a new specificity. These results could serve as a basis for understanding the role of the presence of a T/A or G/C base-pair in the position -4 in the two types of ecdysone response elements found in nature.
    Źródło:
    Acta Biochimica Polonica; 2002, 49, 3; 747-756
    0001-527X
    Pojawia się w:
    Acta Biochimica Polonica
    Dostawca treści:
    Biblioteka Nauki
    Artykuł
    Tytuł:
    Identification of cell cycle proteins interacting with Arabidopsis thaliana proliferating cell nuclear antigen using bimolecular fluorescence complementation assay
    Autorzy:
    Strzalka, W.
    Jakubowska, A.
    Bartnicki, F.
    Pels, K.
    Kowalska, E.
    Powiązania:
    https://bibliotekanauki.pl/articles/80766.pdf
    Data publikacji:
    2013
    Wydawca:
    Polska Akademia Nauk. Czytelnia Czasopism PAN
    Tematy:
    conference
    proliferating cell nuclear antigen
    bimolecular fluorescence
    cell cycle
    protein interaction
    Arabidopsis thaliana
    DNA replication
    cyclin dependent kinase inhibitor
    cyclin-dependent kinase 2
    Źródło:
    BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2013, 94, 3
    0860-7796
    Pojawia się w:
    BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
    Dostawca treści:
    Biblioteka Nauki
    Artykuł
    Tytuł:
    Molecular modelling of the interaction of carbocyclic analogues of netropsin and distamycin with d(CGCGAATTCGCG)2.
    Autorzy:
    Bielawski, Krzysztof
    Bielawska, Anna
    Bartulewicz, Danuta
    Różański, Andrzej
    Powiązania:
    https://bibliotekanauki.pl/articles/1044344.pdf
    Data publikacji:
    2000
    Wydawca:
    Polskie Towarzystwo Biochemiczne
    Tematy:
    carbocyclic analogues of netropsin and distamycin
    distamycin
    DNA-ligand interaction
    netropsin
    molecular modelling
    Opis:
    A molecular mechanics and molecular dynamics approach was used to examine the structure of complexes formed between the d(CGCGAATTCGCG)2 duplex and netropsin, distamycin, and four carbocyclic analogues of netropsin and distamycin (1-4). The resulting structures of the ligand-DNA model complexes and their energetics were examined. It is predicted that the compounds 1-4 should have a decreased affinity for the minor groove of AT-rich regions in comparison to netropsin and distamycin. From the energetic analysis it appears that van der Waals and electrostatic interactions are more important than specific hydrogen bonds in stabilizing the ligand-duplex complexes. We predict that compounds 1 and 2 are effectively isohelical with the DNA minor groove. The superior DNA-binding afforded by 1 and 2 in comparison to 3 and 4 results from their more effective penetration into the minor groove and smaller perturbation of molecular structure upon complex formation.
    Źródło:
    Acta Biochimica Polonica; 2000, 47, 3; 855-866
    0001-527X
    Pojawia się w:
    Acta Biochimica Polonica
    Dostawca treści:
    Biblioteka Nauki
    Artykuł
    Tytuł:
    New carbocyclic analogues of netropsin: Synthesis and inhibition of topoisomerases.
    Autorzy:
    Pućkowska, Anna
    Bielawski, Krzysztof
    Bielawska, Anna
    Róański, Andrzej
    Powiązania:
    https://bibliotekanauki.pl/articles/1043824.pdf
    Data publikacji:
    2002
    Wydawca:
    Polskie Towarzystwo Biochemiczne
    Tematy:
    topoisomerase inhibition
    DNA interaction
    lexitropsin
    carbocyclic analogues of netropsin
    Opis:
    A series of carbocyclic analogues of netropsin were synthesized and evaluated for their capacity to inhibit human topoisomerases I and II in vitro. The compounds are oligopeptides containing 1,4-di- and 1,2,5-trisubstituted benzene rings and unsubstituted N-terminal NH2 groups. Compounds 4-7 consist of two netropsin-like units linked by aliphatic (tetra- and hexamethylene) chains. In the topoisomerase I and II assay, the relaxation of pBR322 plasmid was inhibited by compounds 4-7 at 100 μM concentration.
    Źródło:
    Acta Biochimica Polonica; 2002, 49, 1; 177-183
    0001-527X
    Pojawia się w:
    Acta Biochimica Polonica
    Dostawca treści:
    Biblioteka Nauki
    Artykuł
    Tytuł:
    WRKY transcription factors in response to ROS
    Autorzy:
    Vaahtera, L.
    Koskela, M.
    Jolma, A.
    Nurkkala, H.
    Varjosalo, M.
    Brosche, M.
    Powiązania:
    https://bibliotekanauki.pl/articles/81134.pdf
    Data publikacji:
    2013
    Wydawca:
    Polska Akademia Nauk. Czytelnia Czasopism PAN
    Tematy:
    conference
    Arabidopsis
    reactive oxygen species
    WRKY transcription factors
    protein-protein interaction
    protein-DNA interaction
    gene promoter
    Źródło:
    BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2013, 94, 2
    0860-7796
    Pojawia się w:
    BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
    Dostawca treści:
    Biblioteka Nauki
    Artykuł
      Wyświetlanie 1-7 z 7

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