Global ETD Search
Search theses and dissertations gathered from participating repositories worldwide. Every result links back to the library that holds it. No account is needed.
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Showing 1 to 14 of 14 for “"DNA bending"”.
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DNA Bending by Steroid Receptors
Protein induced DNA bending is a common feature of many prokaryotic and eukaryotic DNA binding proteins and may be important in the regulation of gene transcription. Therefore, it was of interest to more clearly examine receptor-induced DNA bending and its relationship to transcriptional …
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Continuum electrostatic analysis of DNA bending
Thesis (M.S.)--Massachusetts Institute of Technology, Dept. of Chemistry, 1996.
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Application of the Theory of Elasticity to Modeling of Protein -Dna Interactions
… to modeling the conformations and energetics of DNA loops is presented. The model is based on the classical theory of elasticity, modified to describe the intrinsic twist and curvature of DNA, the DNA bending anisotropy, and electrostatic properties. All the model parameters are considered to be …
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Unexpected mechanical properties of nucleic acids
… role in many biological life processes. The bending persistence length of DNA is of specific interest, because so much eukaryotic DNA that stores genetic information is tightly packed inside cell nuclei, even though DNA is considered to be a relatively stiff biopolymer. However, recent …
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Integration Host Factor and Its Interaction With the H-Prime Site of Bacteriophage Lambda
… Host Factor (IHF) is a sequence-specific DNA-bending protein of Escherichia coli that recognizes the DNA through contacts made to the backbone and the minor groove. IHF binds specifically to the H$\sp\prime$ site, $5\sp\prime$-TAAAAAAGCATTGCTTATCAATTTGTTGCAACGA-$3\sp\prime$, with a $\rm …
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Deformability and Dynamics in Linear and Looped/Supercoiled DNA with Implications for Damage Sensing
… must scan billions of base pairs (bp) of genomic DNA to identify damaged sites and initiate repair. These proteins diffuse rapidly along DNA, with <500 µs “dwell” time per site, while damage recognition—often involving DNA bending or unwinding—occurs over much slower timescales (>10 ms). This …
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DNA target site recognition by the Ll.LtrB group II intron RNP
… retroelements that site-specifically insert into DNA target sequences. The group II intron mobility pathway is mediated by a ribonucleoprotein particle (RNP) composed of excised intron RNA and an intron-encoded protein (IEP). The intron lariat inserts at a specific DNA target sequence and is then …
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Gene Regulation Through Artificially Induced DNA Conformational Changes
The conformation of DNA has been shown to play an important role in the regulation of gene expression. A consequence of this finding is that agents that alter the conformation of DNA should also affect the regulation of gene expression. To explore this, we used tethered-triple helix …
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Mechanisms and Evolution of Mitoribosomal Small Subunit Biogenesis
… overlooked, including the involvement of a DNA-bending protein (Chapter 4). Together, this work provides the first insights into mitoribosomal small subunit biogenesis, revealing the structure and function of assembly factors, the role of novel players in ribosome assembly pathways, and key …
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Modulation of Cis-syn Cyclobutane Dimer Formation and Deamination at CpG sites by Nucleosome Particles and Its Implications for Deamination Bypass Mechanism for the Origin of C to T Mutations
… is positioned away from the histone surface and DNA bending is toward the major groove. Nucleosomes have also been found reduce the rate of nuclear excision repair to different extents depending on specific tissue and cell type. Although the frequency of CPD formation and repair is modestly …
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Molecular mechanisms underlying regulation of type III secretion system upstream of the master regulator HrpL in Erwinia amylovora
… nucleoid structure and gene expression via DNA bending. Two single mutants (ihfA and ihfB) were generated and characterized in E. amylovora. Results showed that both ihfA and ihfB mutants failed to colonize and produce necrotic lesions on immature pear fruits. Bacterial growth of both …
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Quantum magnetic imaging for DNA biophysical measurements
… NV quantum sensor to study single-molecule DNA bio-mechanical orientation. A wide-field vector mag- netic field imaging platform based on a near-surface ensemble of diamond NV defects is constructed. This wide-field magnetic imager enables nanotesla scale magnetic sensitivity with …
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The role of Bacteroides Host Factor A in CTnDOT integration and Holliday junction resolution
… in an in vitro integration assay. I purified DNA binding proteins from a Bacteroides thetaiotaomicron strain lacking known ICEs. The purified fractions were then tested in the in vitro integration assay. The active fraction contained a protein that we named BHFa for Bacteroides Host Factor A. …
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The role of DNA supercoiling in the coordinated regulation of gene expression in Helicobacter pylori
… in global or local supercoiling of chromosomal DNA are thought to play a role in global gene silencing and gene activation. In Helicobacter pylori, a bacterium with few dedicated transcriptional regulators, the structure of some promoters indicates a dependency on DNA topology. For example, the …