Browsing Biological chemistry by Issue Date
Now showing items 1-20 of 63
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Properties of Alkaline Phosphatase from Bacillus Subtilis
(1965)An increase in the activity of alkaline phosphatase was observed in an in vitro system containing soluble and particulate fractions from Bacillus Subtills (Whiteley and Oishi, 1963). In order to determine whether the ... -
Undergraduate Research Reports 1 and 2
(1965-11-03)Ferredoxin, a low molecular weight electron transport protein, is found in plants and numerous anaerobic bacteria (6, 17). It was first isolated from Colstridium pasteurianum by Morten et al (23). Ferredoxins from various ... -
NMR studies of the DNA-binding domain of ADR1
(1996)Nuclear magnetic resonance spectroscopy was used to study the DNA-binding domain of yeast transcription factor ADR1. A polypeptide containing the minimal DNA-binding region was overexpressed in E. coli and purified to ... -
The role of glycogen synthase kinase 3 in early xenopus development
(1997)Experiments early in this century indicated that dorsoventral axis formation in the Xenopus embryo requires the activity of the Spemann organizer, or gastrula organizer. Cell and cytoplasmic transplantation studies ... -
The neurogenic genes in Drosophila oogenesis
(1998)The Notch receptor of Drosophila and its homologues in other organisms mediate cell-cell interactions required for the correct partitioning of cell fates within equivalence groups. Genes related to Notch and other components ... -
Identification, interactions, and specificity of a novel MAP kinase kinase, MKK7
(1999)The mitogen activated protein kinase (MAP kinase) cascade has emerged as an evolutionarily conserved element in the transduction of a wide variety of extracellular signals. In mammals, at least three distinct pathways have ... -
Elimination of zinc from synaptic visicles in the intact mouse brain by targeted disruption of ZnT3
(2000)This dissertation demonstrates that zinc is taken up into synaptic vesicles by a mechanism that requires the zinc transporter, ZnT3, at the vesicle membrane and begins to address the physiological importance of synaptic ... -
Structural and computational studies of two oligonucleotide modifying enzymes: I-PpoI and T4 polynucleotide kinase
(2002)Endonucleases are a large class of enzymes that catalyze the formation of site-specific double strand breaks in DNA. Homing endonucleases are expressed from open reading frames within intervening sequences (introns or ... -
Electrostatic interactions and exciton coupling in photosynthetic light-harvesting complexes and reaction centers
(2002)Protein-pigment complexes are integral to many biochemical reactions. The properties of the pigments in these complexes depend in large part on the protein which serves as both scaffold and solvent. The relative positions ... -
In silico protein evolution by intelligent design: creating new and improved protein structures
(2005)Natural proteins perform a startling diversity of biological functions, but comprise a miniscule fraction of the theoretical sequence-structure space that polypeptides might occupy. The goal of protein design is to identify ... -
Identifying substrate and E2 interactions of the BRCA1/BARD1 ubiquitin ligase
(2007)My thesis project addresses the need to understand the function of the Breast Cancer Susceptibility Protein, BRCA1, during the process of protein ubiquitination. A significant number of known cancer predisposing mutations ... -
Development and validation of statistical potential functions for the prediction of protein/nucleic-acid interactions from structure
(2007)This work outlines the development, validation and application of a series of novel statistical (knowledge-based) potential functions to the prediction of protein/nucleic-acid interactions from structure. Three methods are ... -
Influence of Protein Environment on Tryptophan Fluorescence
(2012-09-13)Tryptophan fluorescence is often used as a probe of protein structure. One example of this involved the study how a mutation in catechol O-methyltrasferase produces a less stable protein. Other examples of the use of ... -
Structure-based Computational Retargeting of RNA Binding Proteins
(2012-09-13)Protein-RNA interactions play a central role in post-transcriptional regulation. By interacting with precursor and mature mRNA transcripts, RNA binding proteins (RBP) regulate the expression level and isoform of proteins ... -
The Role of A-type Lamins in Normal Cardiac Function
(2013-02-25)A-type lamins, primarily represented by the proteins lamin A and lamin C, are unique intermediate filaments that localize to the inner nuclear membrane to form the nuclear lamina. The lamina helps maintain nuclear structure ... -
Computational de-novo design of ester hydrolases
(2013-02-25)Computational protein design is a relatively new technique used to devise amino acid sequences to fold into proteins having novel structures or functions. Here, we first give an overview about the approaches and algorithms ... -
From transposon to transcription factor: Genome-wide functional studies of the conserved primate CSB-PGBD3 fusion protein
(2013-02-25)The CSB-PGBD3 fusion protein arose over 43 million years ago when a 2.5 kb piggyBac 3 (PGBD3) transposon inserted into intron 5 of the Cockayne syndrome Group B (CSB) gene in the common ancestor of all higher primates. As ... -
Engineering Gene Targeting Reagents Through Computational Design and Directed Evolution of Protein-DNA Interactions
(2013-02-25)Homing endonucleases have great potential as tools for targeted gene therapy and gene correction. These DNA cleavage enzymes are capable of inducing gene repair or disruption by stimulating DNA repair pathways at a specific ... -
Functional Interactions of E2~Ubiquitin Conjugates in and outside the Ubiquitination Pathway
(2013-04-17)Thirty years of research have implicated ubiquitin (Ub) signaling in nearly every aspect of eukaryotic cell biology. What appears to be a simple signaling molecule in fact has the ability to encode countless cellular fates ... -
Assessing and Improving Computational Models of Protein Thermodynamics and Kinetics
(2013-04-17)The purpose of this thesis is to rigorously assess and improve computational models of protein thermodynamics and kinetics. The first part consists of computational ddG prediction; we explore the performance of protocols ...