Works Published in 2013
Displaying works 1 - 20 of 48 in total
Sorted by most recent date added to the index first, which may not be the same as publication date order.
2013 report
Attenuated FNR deficient enterobacteria
(Patent No. US8435506B2).
Source: NC State University Libraries
Added: March 12, 2022
2013 journal article
UDP-glucose Dehydrogenase Activity and Optimal Downstream Cellular Function Require Dynamic Reorganization at the Dimer-Dimer Subunit Interfaces
Journal of Biological Chemistry, 288(49), 35049–35057.
author keywords: Dehydrogenase; Enzyme Catalysis; Glycobiology; Hyaluronate; Prostate Cancer; Protein Conformation; Protein Dynamics; Cardiac Defects; Human UGDH; Hyaluronan
MeSH headings : Amino Acid Substitution; Enzyme Stability; HEK293 Cells; Humans; Kinetics; Models, Molecular; Mutagenesis, Site-Directed; Protein Interaction Domains and Motifs; Protein Multimerization; Protein Structure, Quaternary; Protein Subunits; Proteolysis; Thermodynamics; Uridine Diphosphate Glucose Dehydrogenase / chemistry; Uridine Diphosphate Glucose Dehydrogenase / genetics; Uridine Diphosphate Glucose Dehydrogenase / metabolism
TL;DR:
Comparison of kinetic and thermal stability parameters revealed structurally dependent properties consistent with a role for controlled assembly and disassembly of the hexamer in the regulation of UGDH, which support a model that requires an operational dimer-hexamer equilibrium to function efficiently and preserve regulated activity in the cell.
(via Semantic Scholar)
www.jbc.org (publisher PDF)
Source: Crossref
Added: August 28, 2020
2013 journal article
Third School on the Applications of Neutron Scattering Techniques in Structural Biology, Oak Ridge, TN
Neutron News, 24(1), 4–4.
Source: ORCID
Added: January 6, 2020
2013 journal article
Refinement of macromolecular structures against neutron data withSHELXL2013
Journal of Applied Crystallography, 47(1), 462–466.
TL;DR:
Improvements over the previous versions that facilitate the refinement of macromolecular structures against neutron data are included and a list of restraints for H-atom refinement is included.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: ORCID, NC State University Libraries
Added: January 6, 2020
2013 article
Neutron Scattering Techniques and Applications in Structural Biology
Ankner, J. F., Heller, W. T., Herwig, K. W., Meilleur, F., & Myles, D. A. A. (2013, April). Current Protocols in Protein Science.
MeSH headings : Cell Membrane / chemistry; Deuterium; Models, Molecular; Molecular Biology / methods; Neutron Diffraction / methods; Neutrons; Proteins / chemistry
TL;DR:
An overview of the available techniques and their practical application to the study of biomolecular systems is described and summarized.
(via Semantic Scholar)
Source: ORCID
Added: January 6, 2020
2013 journal article
The IMAGINE instrument: first neutron protein structure and new capabilities for neutron macromolecular crystallography.
Biological Crystallography, 69(Pt 10), 2157–2160,
MeSH headings : Archaeal Proteins / chemistry; Crystallography, X-Ray / instrumentation; Crystallography, X-Ray / methods; Hydrogen Bonding; Macromolecular Substances / chemistry; Neutrons; Pyrococcus furiosus / chemistry; Rubredoxins / chemistry; Scattering, Radiation; X-Ray Diffraction
TL;DR:
The first high-resolution neutron protein structure of perdeuterated rubredoxin from Pyrococcus furiosus (PfRd) determined using the new IMAGINE macromolecular neutron crystallography instrument at the Oak Ridge National Laboratory is reported.
(via Semantic Scholar)
Source: ORCID
Added: January 6, 2020
2013 book
Experimental biochemistry: Theory, experiment, analysis and reporting
Dubuque, Iowa: Kendall Hunt.
Source: NC State University Libraries
Added: August 6, 2018
2013 journal article
Origin of Overstretching Transitions in Single-Stranded Nucleic Acids
PHYSICAL REVIEW LETTERS, 111(18).
MeSH headings : DNA, Single-Stranded / chemistry; Elasticity; Hydrogen Bonding; Microscopy, Atomic Force / methods; Models, Molecular; Nuclear Magnetic Resonance, Biomolecular / methods; Nucleic Acid Conformation; RNA / chemistry; Spectrum Analysis / methods
TL;DR:
Observations suggest new fundamental relationships between the canonical structures of single-and double-stranded DNA and the mechanism of their molecular elasticity.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2013 journal article
Ferritin: The Protein Nanocage and Iron Biomineral in Health and in Disease
INORGANIC CHEMISTRY, 52(21), 12223–12233.
MeSH headings : Anemia / drug therapy; Animals; Catalytic Domain; Drug Delivery Systems / methods; Ferritins / chemistry; Ferritins / genetics; Ferritins / metabolism; Hemosiderin / metabolism; Humans; Iron Overload / drug therapy; Molecular Targeted Therapy / methods; Nanostructures / administration & dosage; RNA, Messenger; Transfusion Reaction
TL;DR:
Current concepts of ferritin structure/function/genetic regulation are discussed and related to possible therapeutic targets such as mini-ferritin/Dps protein active sites (selective pathogen inhibition in infection), nanocage pores (iron chelation in therapeutic hypertransfusion), mRNA noncoding, IRE riboregulator, and protein nanovessels to deliver medicinal or sensor cargo are discussed.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2013 journal article
Understanding the Role of Proteolytic Digestion on Discovery and Targeted Proteomic Measurements Using Liquid Chromatography Tandem Mass Spectrometry and Design of Experiments
JOURNAL OF PROTEOME RESEARCH, 12(12), 5820–5829.
author keywords: design of experiments; proteolytic digestion; LC-MS/MS; Populus trichocarpa
MeSH headings : Amino Acid Sequence; Animals; Cattle; Chromatography, Liquid / standards; Factor Analysis, Statistical; Hydrogen-Ion Concentration; Isotope Labeling; Molecular Sequence Annotation; Molecular Sequence Data; Peptide Fragments / chemistry; Peptide Fragments / isolation & purification; Plant Proteins / chemistry; Plant Proteins / isolation & purification; Populus / chemistry; Protein Stability; Proteolysis; Proteomics / methods; Proteomics / standards; Research Design; Swine; Tandem Mass Spectrometry / standards; Trypsin / chemistry; Xylem / chemistry
TL;DR:
The tryptic digest optimization described here has eliminated this previously observed peptide decay as well as provided a greater understanding and standardization for a common but critical sample treatment used across the field of proteomics.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2013 review
Transcriptional regulation by Ferric Uptake Regulator (Fur) in pathogenic bacteria
[Review of ]. FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY, 3.
author keywords: Ferric Uptake Regulator; iron; oxidative stress; gene regulation; pathogenic bacteria
MeSH headings : Animals; Bacteria / genetics; Bacteria / isolation & purification; Bacteria / metabolism; Bacterial Infections / microbiology; Bacterial Proteins / genetics; Bacterial Proteins / metabolism; Ferric Compounds / metabolism; Gene Expression Regulation, Bacterial; Host-Pathogen Interactions; Humans; Oxidative Stress; Reactive Oxygen Species / metabolism; Reactive Oxygen Species / toxicity; Repressor Proteins / genetics; Repressor Proteins / metabolism; Transcription, Genetic
TL;DR:
This review focuses on the breadth of Fur regulation in pathogenic bacteria since mutants of fur, perR, or zur exhibit reduced virulence within numerous animal and plant models of infection.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018
2013 journal article
The Amborella Genome and the Evolution of Flowering Plants
SCIENCE, 342(6165), 1467-+.
MeSH headings : Conservation of Natural Resources; Contig Mapping; Evolution, Molecular; Flowers / genetics; Gene Duplication; Genetic Variation; Genome, Plant; Metagenomics / statistics & numerical data; Molecular Sequence Annotation; Multigene Family; New Caledonia; Phylogeny; Sequence Analysis, DNA; Tracheophyta / classification; Tracheophyta / genetics; Tracheophyta / growth & development
TL;DR:
Genome structure and phylogenomic analyses indicate that the ancestral Angiosperm was a polyploid with a large constellation of both novel and ancient genes that survived to play key roles in angiosperm biology.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2013 journal article
SND1 Transcription Factor-Directed Quantitative Functional Hierarchical Genetic Regulatory Network in Wood Formation in Populus trichocarpa
PLANT CELL, 25(11), 4324–4341.
MeSH headings : Algorithms; Cell Wall / genetics; Chromatin Immunoprecipitation; Gene Expression Regulation, Plant; Gene Ontology; Gene Regulatory Networks; High-Throughput Nucleotide Sequencing; Models, Genetic; Plant Proteins / genetics; Plant Proteins / metabolism; Plants, Genetically Modified; Polymerase Chain Reaction / methods; Populus / genetics; Populus / metabolism; Protoplasts; Reproducibility of Results; Transcription Factors / genetics; Transcription Factors / metabolism; Transfection; Wood / genetics; Wood / metabolism; Xylem / cytology; Xylem / genetics
TL;DR:
A genome-wide high-throughput system for the discovery and validation of specific transcription factor (TF)–directed hierarchical gene regulatory networks (hGRNs) in wood formation is developed and may be particularly useful to study hGRNs in complex processes in plant species resistant to stable genetic transformation and where mutants are unavailable.
(via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018
2013 journal article
Polymeric Systems Incorporating Plant Viral Nanoparticles for Tailored Release of Therapeutics
ADVANCED HEALTHCARE MATERIALS, 2(7), 1001–1007.
author keywords: controlled release; drug delivery; nanofibers; plant viral nanoparticles; virus
MeSH headings : Antineoplastic Agents / administration & dosage; Doxorubicin / administration & dosage; Drug Carriers; Kinetics; Nanoparticles; Plant Viruses; Polymers
TL;DR:
Kinetic analysis results suggest a two‐phase release profile with the first phase following a hindered Fickian transport mechanism for the release of Dox for the polymer‐embedded PVNs and the nanofiber matrices that incorporate PVNs through the immersion processing method followed a pseudo‐first order kinetic transport mechanism.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2013 journal article
Lengthening the Intersubunit Linker of Procaspase 3 Leads to Constitutive Activation
BIOCHEMISTRY, 52(36), 6219–6231.
MeSH headings : Apoptosis / physiology; Caspase 3 / chemistry; Caspase 3 / genetics; Caspase 3 / metabolism; Caspase Inhibitors / pharmacology; Catalytic Domain; Enzyme Activation; Enzyme Precursors / chemistry; Models, Chemical; Models, Molecular; Molecular Dynamics Simulation; Protein Conformation; Protein Multimerization
TL;DR:
The data show that releasing the strain of the short IL is not sufficient to populate the active conformer of the native ensemble, and it is shown that increasing the length of the IL by introducing 3-5 alanines results in constitutively active procaspases.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2013 journal article
On the structure of water and chloride ion interactions with a peptide backbone in solution
Physical Chemistry Chemical Physics, 15(48), 21023–21033.
Source: NC State University Libraries
Added: August 6, 2018
2013 journal article
Transcriptional regulation of the human ferritin gene by coordinated regulation of Nrf2 and protein arginine methyltransferases PRMT1 and PRMT4
FASEB JOURNAL, 27(9), 3763–3774.
author keywords: arsenic; histone methylation; antioxidant; oxidative stress
MeSH headings : Antioxidants / metabolism; Arsenic / toxicity; Cell Line; Cells, Cultured; Ferritins / genetics; Fibroblasts / cytology; Fibroblasts / metabolism; Histones / metabolism; Humans; Keratinocytes / cytology; Keratinocytes / metabolism; Methylation; NF-E2-Related Factor 2 / genetics; NF-E2-Related Factor 2 / metabolism; Oxidative Stress / drug effects; Oxidative Stress / genetics; Protein-Arginine N-Methyltransferases / genetics; Protein-Arginine N-Methyltransferases / metabolism; Repressor Proteins / genetics; Repressor Proteins / metabolism; Transcription, Genetic / drug effects; Transcription, Genetic / genetics
TL;DR:
To test the hypothesis that histone H4R3 and H3R17 methylation regulates ferritin transcription, PRMT1 and PRMT4 regulate the ARE and cellular antioxidant response to arsenic, and focused microarray characterized several oxidative stress response genes are subject toPRMT1 orPRMT4 regulation.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2013 journal article
The role of T56 in controlling the flexibility of the distal histidine in dehaloperoxidase-hemoglobin from Amphitrite ornata
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS, 1834(10), 2020–2029.
author keywords: Enzyme kinetics; Catalytic efficiency; Hemichrome; Resonance Raman; Molecular dynamics
MeSH headings : Animals; Biocatalysis; Heme / chemistry; Hemoglobins / chemistry; Hemoglobins / genetics; Histidine / chemistry; Histidine / genetics; Iron / chemistry; Kinetics; Molecular Dynamics Simulation; Mutagenesis, Site-Directed; Peroxidases / chemistry; Peroxidases / genetics; Polychaeta / chemistry; Polychaeta / enzymology; Recombinant Proteins / chemistry; Recombinant Proteins / genetics; Spectroscopy, Fourier Transform Infrared; Spectrum Analysis, Raman; Thermodynamics; Threonine / chemistry; Threonine / genetics
TL;DR:
It is confirmed that subtle changes in the conformation of H55 affect the catalytic efficiency of DHP, and a balance of enzymatic rate and protein stability with respect to hemichrome formation appears to be optimum in wild type DHP (WT-DHP).
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2013 journal article
Slow folding and assembly of a procaspase-3 interface variant
Biochemistry, 52(20), 3415–3427.
Source: NC State University Libraries
Added: August 6, 2018
2013 journal article
Peptide Aptamers That Bind to Geminivirus Replication Proteins Confer a Resistance Phenotype to Tomato Yellow Leaf Curl Virus and Tomato Mottle Virus Infection in Tomato
JOURNAL OF VIROLOGY, 87(17), 9691–9706.
MeSH headings : Amino Acid Sequence; Aptamers, Peptide / genetics; Aptamers, Peptide / metabolism; Begomovirus / genetics; Begomovirus / pathogenicity; Begomovirus / physiology; DNA, Viral / genetics; DNA, Viral / metabolism; Geminiviridae / genetics; Geminiviridae / pathogenicity; Geminiviridae / physiology; Solanum lycopersicum / virology; Molecular Sequence Data; Phenotype; Plant Diseases / genetics; Plant Diseases / prevention & control; Plant Diseases / virology; Plants, Genetically Modified; Protein Binding; Two-Hybrid System Techniques; Viral Proteins / genetics; Viral Proteins / physiology; Virus Replication
TL;DR:
The efficacy of using Rep-binding peptide aptamers to develop crops that are resistant to diverse geminiviruses is established.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018
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