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Search Results to Kevin Raney

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overview My laboratory is interested in the enzymology and chemistry of nucleic acid enzymes. Helicases are enzymes that manipulate DNA and RNA in all aspects of nucleic acid metabolism. We are studying a DNA helicase from Bacteriophage T4 called Dda (for DNA-Dependent-ATPase) in order to develop a detailed chemical and kinetic mechanism for DNA unwinding by this model DNA helicase. A second enzyme we study is called Pif1. This helicase is involved in many aspects of DNA metabolism ranging from telomere maintenance to transcription. Pif1 binds tightly to unusual DNA structures called quadruplexes, for which the biological functions are being intensively explored. A second project involves the Hepatitis C viral helicase NS3 (Non-Structural Protein 3). NS3 is an RNA helicase that is capable of unwinding DNA. We are studying the mechanism of NS3 as well as its interactions with other HCV and cellular proteins. Our goal is to recapitulate RNA replication in vitro using biological relevant substrates and proteins and a biologically relevant sub-genomic replicon of HCV. Our research projects are currently expanding in development of new tools for studying and protein-protein interactions and post-translational modifications at specific sites in the genome using a Crispr-based approach coupled with protein mass spectrometry. In a new project, we have recently discovered a possible signaling mechanism by which cells respond to DNA damage. During oxidative stress, guanine residues are oxidized, leading to excision of the damaged DNA. When the excised DNA consists of specific sequences containing runs of guanine, the resulting DNA fragment can fold into a stable structure called quadruplex DNA. Telomeric DNA is particularly susceptible to oxidative stress and contains sequences that readily fold into quadruplex structures. The excised DNA quadruplexes can bind to proteins such as DHX36 (a helicase), leading to formation of sub-organelles called stress granules. The functional role of stress granules is to modulate translation. Hence, this mechanism provides a stepwise chemical mechanism for the cell to respond to DNA damage leading to changes in translation.

One or more keywords matched the following items that are connected to Raney, Kevin

Item TypeName
Academic Article Multiple full-length NS3 molecules are required for optimal unwinding of oligonucleotide DNA in vitro.
Academic Article Investigation of translocation, DNA unwinding, and protein displacement by NS3h, the helicase domain from the hepatitis C virus helicase.
Academic Article CLPM: a cross-linked peptide mapping algorithm for mass spectrometric analysis.
Academic Article A simple procedure for solid-phase synthesis of peptide nucleic acids with N-terminal cysteine.
Academic Article Comparison of rates of enzymatic oxidation of aflatoxin B1, aflatoxin G1, and sterigmatocystin and activities of the epoxides in forming guanyl-N7 adducts and inducing different genetic responses.
Academic Article Hepatitis C virus nonstructural protein 5A: biochemical characterization of a novel structural class of RNA-binding proteins.
Academic Article Oxidation of aflatoxins and sterigmatocystin by human liver microsomes: significance of aflatoxin Q1 as a detoxication product of aflatoxin B1.
Academic Article A fluorescence-based assay for monitoring helicase activity.
Academic Article The endo-8,9-epoxide of aflatoxin B1: a new metabolite.
Academic Article Glutathione conjugation of aflatoxin B1 exo- and endo-epoxides by rat and human glutathione S-transferases.
Concept Magnetic Resonance Spectroscopy
Concept Spectrometry, Fluorescence
Concept Spectrometry, Mass, Fast Atom Bombardment
Concept Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
Concept Tandem Mass Spectrometry
Concept Mass Spectrometry
Academic Article Using Mass Spectrometry to Elucidate the Structure of Dda Helicase
Academic Article A CRISPR-based approach for proteomic analysis of a single genomic locus.
Academic Article XLPM: efficient algorithm for the analysis of protein-protein contacts using chemical cross-linking mass spectrometry.
Academic Article Large Scale Chemical Cross-linking Mass Spectrometry Perspectives.
Academic Article Analysis of Protein-protein Interaction Interface between Yeast Mitochondrial Proteins Rim1 and Pif1 Using Chemical Cross-linking Mass Spectrometry.
Grant Mechanisms of RNA binding and remodeling proteins
Grant HCV NS3: Biological, Biochemical and Structural Analysis
Grant Using ChAP-MS to Study Macromolecular Chromatin Composition during Transcription
Grant DNA Unwinding and Translocation by Helicases
Academic Article DEAD-box RNA helicases Dbp2, Ded1 and Mss116 bind to G-quadruplex nucleic acids and destabilize G-quadruplex RNA.

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