Header Logo
Keywords
Last Name
Institution
Announcement

You can now add alternative names! Click here to add other names that you've published under.

Connection

Search Results to Kevin Raney

This is a "connection" page, showing the details of why an item matched the keywords from your search.

                     
                     

One or more keywords matched the following properties of Raney, Kevin

PropertyValue
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 Chemically modified DNA substrates implicate the importance of electrostatic interactions for DNA unwinding by Dda helicase.
Academic Article Intermediates revealed in the kinetic mechanism for DNA unwinding by a monomeric helicase.
Academic Article Multiple full-length NS3 molecules are required for optimal unwinding of oligonucleotide DNA in vitro.
Academic Article A bis-alkylating triplex forming oligonucleotide inhibits intracellular reporter gene expression and prevents triplex unwinding due to helicase activity.
Academic Article Structural and biological identification of residues on the surface of NS3 helicase required for optimal replication of the hepatitis C virus.
Academic Article Displacement of a DNA binding protein by Dda helicase.
Academic Article A helicase staircase.
Academic Article DNA unwinding by Escherichia coli DNA helicase I (TraI) provides evidence for a processive monomeric molecular motor.
Academic Article Alteration of the aflatoxin cyclopentenone ring to a delta-lactone reduces intercalation with DNA and decreases formation of guanine N7 adducts by aflatoxin epoxides.
Academic Article NS3 helicase from the hepatitis C virus can function as a monomer or oligomer depending on enzyme and substrate concentrations.
Academic Article Hepatitis C virus NS3 helicase forms oligomeric structures that exhibit optimal DNA unwinding activity in vitro.
Academic Article The T4 phage SF1B helicase Dda is structurally optimized to perform DNA strand separation.
Academic Article Investigation of translocation, DNA unwinding, and protein displacement by NS3h, the helicase domain from the hepatitis C virus helicase.
Academic Article Dda helicase tightly couples translocation on single-stranded DNA to unwinding of duplex DNA: Dda is an optimally active helicase.
Academic Article Structure and Mechanisms of SF1 DNA Helicases.
Academic Article Increasing the length of the single-stranded overhang enhances unwinding of duplex DNA by bacteriophage T4 Dda helicase.
Academic Article Helicase-catalysed translocation and strand separation.
Academic Article Stoichiometry and DNA unwinding by the bacteriophage T4 41:59 helicase.
Academic Article Analysis of the DNA translocation and unwinding activities of T4 phage helicases.
Academic Article Mechanisms: molecular machines.
Academic Article Dda helicase unwinds a DNA-PNA chimeric substrate: evidence for an inchworm mechanism.
Academic Article Structure and Mechanisms of SF1 DNA Helicases.
Academic Article Bacteriophage T4 Dda helicase translocates in a unidirectional fashion on single-stranded DNA.
Academic Article Novel, fluorescent, SSB protein chimeras with broad utility.
Academic Article Measurement of steady-state kinetic parameters for DNA unwinding by the bacteriophage T4 Dda helicase: use of peptide nucleic acids to trap single-stranded DNA products of helicase reactions.
Academic Article Protein displacement by an assembly of helicase molecules aligned along single-stranded DNA.
Academic Article RNA unwinding activity of the hepatitis C virus NS3 helicase is modulated by the NS5B polymerase.
Academic Article DNA helicases displace streptavidin from biotin-labeled oligonucleotides.
Academic Article Evidence for a functional monomeric form of the bacteriophage T4 DdA helicase. Dda does not form stable oligomeric structures.
Academic Article Binding by the hepatitis C virus NS3 helicase partially melts duplex DNA.
Academic Article DNA unwinding and protein displacement by superfamily 1 and superfamily 2 helicases.
Academic Article Superfamily 2 helicases.
Academic Article Oxidation and conjugation of aflatoxins by humans and experimental animals.
Academic Article Modulation of the hepatitis C virus RNA-dependent RNA polymerase activity by the non-structural (NS) 3 helicase and the NS4B membrane protein.
Academic Article AAV-2 Rep78 and HPV-16 E1 interact in vitro, modulating their ATPase activity.
Academic Article Development and evaluation of a structural model for SF1B helicase Dda.
Academic Article Yeast Pif1 helicase exhibits a one-base-pair stepping mechanism for unwinding duplex DNA.
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 Kinetic mechanism for DNA unwinding by multiple molecules of Dda helicase aligned on DNA.
Academic Article Unwinding of unnatural substrates by a DNA helicase.
Academic Article Biotin-streptavidin-labeled oligonucleotides as probes of helicase mechanisms.
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 Protein displacement by helicases.
Concept DNA Damage
Concept DNA Polymerase I
Concept DNA Replication
Concept DNA, Viral
Concept DNA-Directed DNA Polymerase
Concept DNA Topoisomerases, Type I
Concept DNA Repair
Concept DNA-Binding Proteins
Concept DNA, Recombinant
Concept DNA, Mitochondrial
Concept DNA-Directed RNA Polymerases
Concept DNA Helicases
Concept DNA
Concept DNA, Superhelical
Concept DNA Breaks, Double-Stranded
Concept DNA Footprinting
Concept DNA Primers
Concept DNA Primase
Concept DNA, Single-Stranded
Concept DNA, Fungal
Concept DNA, Circular
Concept DNA, Complementary
Academic Article [G4-quadruplexes and genome instability].
Academic Article Pre-steady state DNA unwinding by bacteriophate T4 Dda helicase reveals a monomeric molecular motor
Academic Article Identification of the Structural Determinants of DNA Required for Supporting Helicase Activity
Academic Article Peptide Nucleic Acid(PNA) as a Trapping Strand in Steady State DNA Unwiding Assays
Academic Article Yeast Pifl helicase exhibits a one-base-pair stepping mechanism for unwinding duplex DNA
Academic Article "Interactions of Peptide Nucleic Acids with DNA Processing Enzymes" in Peptide Nucleic Acids
Academic Article Peptide Nucleic Acid Inhibits HCV-Ns3 Catalyzed Unwinding of DNA and RNA Substrates
Academic Article DNA Adduction by the Potent Carcinogen Aflatoxin B1: Mechanistic Studies
Academic Article Stoichiometry and DNA Unwinding by the Bacteriophage 41:59 Helicase Complex
Academic Article Use of Modified DNA Substrates to Elucidate the Molecular Interactions that are important for Helicase Function
Academic Article Evidence that Singal-Stranded DNA and Double-Stranded DNA can Pass Through the Central Channel of a Hexameric Helicase
Academic Article Physical and functional interaction between yeast Pifl helicase and Rim1 single-stranded DNA binding protein
Academic Article Kinetic Analysis of DNA Unwinding by E coli DNA Helicase l (Tral) reveals a highly Processive Monomeric Molecule Motor
Academic Article HCV NS3 and SV40 T Antigen Helicases displace streptavidin from 5’-biotinylated oligonucleotides but not from 3’-biotinylated oligonucleotides: Evidence for Unidirectional Translocation on Single-stranded DNA
Academic Article Telomere Length Cell Growth Potential and DNA integrity of human immortal Cells are all compromised by pepcide nucleic acids targeted to the telomere or telomerase
Academic Article Dda Helicase Unwinds a DNA-PNA Chimeric Substance: Evidence for an Inchworm Mechanism
Academic Article Investigation of the Kinetic of DNA Unwinding by Helicase 1 Optimization of Oligonucleotide Substance and Reaction Conditions
Academic Article DNA Helicase Displaces Streptavidin from Biotin-Labeled Oligonucleotides with a 5'-to-3' Directional Bias
Academic Article DNA Unwinding by Escherichia coli DNA helicase l (Tral) Provides Evidence for a processive Monomeric Molecular Motor
Academic Article Probing RNA translocases with DNA.
Academic Article Chemical modifications of DNA for study of helicase mechanisms.
Academic Article Simultaneous binding to the tracking strand, displaced strand and the duplex of a DNA fork enhances unwinding by Dda helicase.
Academic Article Yeast Pif1 accelerates annealing of complementary DNA strands.
Academic Article A parallel quadruplex DNA is bound tightly but unfolded slowly by pif1 helicase.
Academic Article XLPM: efficient algorithm for the analysis of protein-protein contacts using chemical cross-linking mass spectrometry.
Academic Article Yeast transcription co-activator Sub1 and its human homolog PC4 preferentially bind to G-quadruplex DNA.
Academic Article Melting of Duplex DNA in the Absence of ATP by the NS3 Helicase Domain through Specific Interaction with a Single-Strand/Double-Strand Junction.
Academic Article Fine tuning of a DNA fork by the RecQ helicase.
Academic Article Yeast Helicase Pif1 Unwinds RNA:DNA Hybrids with Higher Processivity than DNA:DNA Duplexes.
Academic Article Protein-protein interaction analysis for functional characterization of helicases.
Academic Article The Yeast Mitochondrial RNA Polymerase and Transcription Factor Complex Catalyzes Efficient Priming of DNA Synthesis on Single-stranded DNA.
Academic Article Evidence That G-quadruplex DNA Accumulates in the Cytoplasm and Participates in Stress Granule Assembly in Response to Oxidative Stress.
Academic Article Yeast Sub1 and human PC4 are G-quadruplex binding proteins that suppress genome instability at co-transcriptionally formed G4 DNA.
Academic Article A biochemical and biophysical model of G-quadruplex DNA recognition by positive coactivator of transcription 4.
Academic Article A catch and release program for single-stranded DNA.
Academic Article Structure and function of Pif1 helicase.
Academic Article Pif1 helicase unfolding of G-quadruplex DNA is highly dependent on sequence and reaction conditions.
Grant Using ChAP-MS to Study Macromolecular Chromatin Composition during Transcription
Grant HCV NS3 and NS5A: Biochemical Mechanisms and Biological Functions
Grant Partnerships for Biomedical Research in Arkansas
Grant Single molecule nucleic acid enzymology
Grant DNA Unwinding and Translocation by Helicases
Grant MECHANISM OF HEPACIVIRUS REPLICASE ASSEMBLY
Grant G-quadruplex DNA as a chemical signaling agent
Grant MOLECULAR PROBES FOR STUDYING TELOMERASE
Grant Functions and Mechanisms of Helicases and G-Quadruplex Nucleic Acids
Grant DNA Helicases: Mechanism and Function
Academic Article Direct quantification of the translocation activities of Saccharomyces cerevisiae Pif1 helicase.
Academic Article Structural basis for DNA unwinding at forked dsDNA by two coordinating Pif1 helicases.
Academic Article Excessive excision of correct nucleotides during DNA synthesis explained by replication hurdles.
Academic Article Mitochondrial genetic variation is enriched in G-quadruplex regions that stall DNA synthesis in vitro.
Academic Article G-Quadruplex loops regulate PARP-1 enzymatic activation.
Academic Article G-quadruplex DNA inhibits unwinding activity but promotes liquid-liquid phase separation by the DEAD-box helicase Ded1p.
Academic Article A structural feature of Dda helicase which enhances displacement of streptavidin and trp repressor from DNA.
Academic Article Alignment of helicases on single-stranded DNA increases activity.
Academic Article Pif1 Helicase Mediates Remodeling of Protein-Nucleic Acid Complexes by Promoting Dissociation of Sub1 from G-Quadruplex DNA and Cdc13 from G-Rich Single-Stranded DNA.

Search Criteria
  • DNA