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Modeling The 3-Dimensional Structure Of D(Cgcgaattcgcg) And Its 8-Oxo-Da5 Adduct With 1h Nmr Noesy Refinements, Christopher Miles Reynolds
Modeling The 3-Dimensional Structure Of D(Cgcgaattcgcg) And Its 8-Oxo-Da5 Adduct With 1h Nmr Noesy Refinements, Christopher Miles Reynolds
MSU Graduate Theses
Since the characterization of the oligomer d(CGCGAATTCGCG) has been published by Dickerson et al., computational studies have been carried out to produce an accurate 3D model. These models are important for visualizing how certain DNA repair enzymes, such as the glycosylases, recognize sites of damage by signatures of local 3D distortion. Using 1H NOESY-generated internuclear distances to replicate the model of this oligomer and a derivative with an 8-oxo-dA5 lesion, we propose characteristics of helical distortion that DNA glycosylases might use for identifying this form of damage. In addition, this method of comparison can be used to study the repair …
Specific Binding Affinity Of The Non-Catalytic Domain Of Eukaryotic Like Type Ib Topoisomerase Of Vaccinia Virus, Benjamin R. Reed
Specific Binding Affinity Of The Non-Catalytic Domain Of Eukaryotic Like Type Ib Topoisomerase Of Vaccinia Virus, Benjamin R. Reed
Dissertations, Theses, and Capstone Projects
Topoisomerases are ubiquitous proteins that alter supercoiling in double stranded DNA (dsDNA) during transcription and replication and. vaccinia and the closely related poxvirus variola virus, at 314 amino acids in length, encode the smallest of the type I topoisomerases(TopIB). TopIB is a two domain protein that recognizes the sequence 5’-T/CCCTT, cleaves at the 3’-end and relaxes supercoiling through rotation. The C-terminal domain (CTD) alone contains the catalytic activity and specificity. Deletion of the N-terminal domain results in a greatly reduced rate of relaxation and rapid dissociation. Biochemical data suggests that the N-terminal domain (NTD) is important for pre-cleavage binding and …
Synthesis And Characterization Of Amphiphiles For Mammalian Cell Transfection And Antimicrobial Activity, Joseph William Meisel
Synthesis And Characterization Of Amphiphiles For Mammalian Cell Transfection And Antimicrobial Activity, Joseph William Meisel
Dissertations
Amphiphiles are molecules that contain both water-soluble and water-insoluble components. The dual nature of these molecules engenders remarkable properties including the ability to self-assemble into ordered structures. Cell membranes are composed of amphiphilic phospholipids that organize into a bilayer motif. Synthetic amphiphiles can interact with natural membranes and influence the transport of molecules across the cell membrane. The work elaborated in this report employs amphiphiles to co-assemble with DNA and transport the genetic material across cell membranes. First, a simplified method for interacting DNA with amphiphiles was developed. Second, a series of known ion-transporting compounds were assayed for their interaction …
Towards An Understanding Of The Role Of Cation Packaging On Dna Protection From Oxidative Damage, Cody E. Gay
Towards An Understanding Of The Role Of Cation Packaging On Dna Protection From Oxidative Damage, Cody E. Gay
Theses and Dissertations--Chemistry
In sperm chromatin, DNA exists in a highly condensed state reaching a final volume roughly twenty times that of a somatic nucleus. For the vast majority (>90%) of sperm DNA in mammals, somatic-like histones are first replaced by transition proteins which in turn are replaced by arginine-rich protamines. This near crystalline organization of the DNA in mature sperm is thought crucial for both the transport and protection of genetic information since all DNA repair mechanisms are shut down. Recent studies show that increased DNA damage is linked to dysfunctions in replacing histones with protamines resulting in mispackaged DNA. This …
The Study Of Nf-Κb Peptide Mimics And How Proteins Bind Dna, Allee M. Murray
The Study Of Nf-Κb Peptide Mimics And How Proteins Bind Dna, Allee M. Murray
Honors College Theses
The protein complex nuclear factor kappa B (NF-κB) is widely considered to be one of the most influential transcription factors when studying cellular functions. Peptide mimics of NF-κB aim to inhibit DNA binding in order to displace the natural transcription factor, therefore inhibiting transcription and translation. In theory, NF-κB is not the problem; the real problem lies in directing the synthesis and expression of harmful proteins. In conjunction with this, the project aims to study NF-κB and its structure and function to determine what criteria are important for the binding of DNA in order to design a peptide that comes …