Works (54)
Updated: April 4th, 2024 03:05
2023 article
Changes in metabolic landscapes shape divergent but distinct mutational signatures and cytotoxic consequences of redox stress
Degtyareva, N. P., Placentra, V. C., Gabel, S. A., Klimczak, L. J., Gordenin, D. A., Wagner, B. A., … Doetsch, P. W. (2023, April 20). NUCLEIC ACIDS RESEARCH, Vol. 4.
MeSH headings : Humans; Antioxidants; Hydrogen Peroxide / toxicity; Mutation; Oxidation-Reduction; Neoplasms / genetics; Oxidants
TL;DR:
This study provides the framework for understanding multidimensional processes triggered by agents collectively known as oxidants, and detects increased mutational loads associated with potassium bromate-related mutational motifs in human tumors may be clinically relevant as a biomarker of this distinct type of redox stress.
(via Semantic Scholar)
academic.oup.com (publisher PDF)
UN Sustainable Development Goal Categories
15. Life on Land
(OpenAlex)
Sources: Web Of Science, ORCID
Added: May 1, 2023
2021 article
EPR Oximetry with Nitroxides: Effects of Molecular Structure, pH, and Electrolyte Concentration
Voinov, M. A., Smirnova, T. I., & Smirnov, A. I. (2021, November 20). APPLIED MAGNETIC RESONANCE, Vol. 11.
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
6. Clean Water and Sanitation
(OpenAlex)
Sources: ORCID, Web Of Science
Added: November 20, 2021
2021 journal article
Integrative structural dynamics probing of the conformational heterogeneity in synaptosomal-associated protein 25
CELL REPORTS PHYSICAL SCIENCE, 2(11).
TL;DR:
An integrative method is reported to probe the structural dynamics of SNAP-25 by combining replica-exchange discrete molecular dynamics simulations and label-based experiments at ensemble and single-molecule levels and it is expected that this integrative approach may help further the understanding of IDPs.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
7. Affordable and Clean Energy
(OpenAlex)
Sources: Web Of Science, ORCID
Added: March 14, 2022
2021 journal article
Measuring plasma-generated center dot OH and O atoms in liquid using EPR spectroscopy and the non-selectivity of the HTA assay
JOURNAL OF PHYSICS D-APPLIED PHYSICS, 54(14).
author keywords: atmospheric pressure plasma jet; atomic oxygen; hydroxyl radicals; hydrogen peroxide; reactive oxygen species; plasma-liquid chemistry; EPR spectroscopy
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Sources: Web Of Science, ORCID
Added: January 9, 2021
2020 journal article
Alternative Reactivity of Leucine 5-Hydroxylase Using an Olefin-Containing Substrate to Construct a Substituted Piperidine Ring
BIOCHEMISTRY, 59(21), 1961–1965.
Contributors: L. Cha n , S. Milikisiyants n, M. Davidson n, S. Xue *, n , A. Smirnov n , Y. Guo *, W. Chang n
MeSH headings : Alkenes / chemistry; Alkenes / metabolism; Leucine / chemistry; Leucine / metabolism; Mixed Function Oxygenases / chemistry; Mixed Function Oxygenases / metabolism; Molecular Conformation; Nostoc / enzymology; Substrate Specificity
TL;DR:
It is demonstrated that the activity of an Fe/2OG enzyme can be redirected when changing the targeted carbon hybridization from sp3 to sp2 and the resulting epoxide subsequently undergoes intramolecular cyclization to form the substituted piperidine, 2S,5S-hydroxypipecolic acid.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: June 22, 2020
2019 journal article
Dielectric and Electrostatic Properties of the Silica Nanoparticle-Water Interface by EPR of pH-Sensitive Spin Probes
JOURNAL OF PHYSICAL CHEMISTRY C, 123(49), 29972–29985.
Contributors: V. Perelygin n, M. Voinov n, A. Marek n, E. Ou n, J. Krim n , D. Brenner n, n , A. Smirnov n
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
6. Clean Water and Sanitation
(OpenAlex)
Sources: Web Of Science, ORCID
Added: January 6, 2020
2019 article
EPR studies of bionanomaterials
ELECTRON MAGNETIC RESONANCE - APPLICATIONS IN PHYSICAL SCIENCES AND BIOLOGY, Vol. 50, pp. 129–159.
TL;DR:
This chapter discusses some recent applications of EPR in studies bionanomaterials with particular emphasis on the interfacial properties of the nanoobjects and their interactions with biomacromolecules.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: November 18, 2019
2019 journal article
Effect of Silica Support on Electrostatics of Lipid Interfaces in Nano-Bio Hybrid Systems
Biophysical Journal, 116(3), 81a.
Sources: Crossref, ORCID
Added: February 24, 2020
2019 review
Spontaneous Switching among Conformational Ensembles in Intrinsically Disordered Proteins
[Review of ]. BIOMOLECULES, 9(3).
author keywords: dynamic configuration; free energy landscape; intrinsically disordered protein; IDP
MeSH headings : Humans; Intrinsically Disordered Proteins / chemistry; Protein Conformation
TL;DR:
A growing number of proteins that appear intrinsically disordered by biochemical and bioinformatic characterization but switch between restricted regions of conformational space are described.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
7. Affordable and Clean Energy
(OpenAlex)
Sources: Web Of Science, ORCID
Added: April 29, 2019
2018 journal article
Elucidating the Reaction Pathway of Decarboxylation-Assisted Olefination Catalyzed by a Mononuclear Non-Heme Iron Enzyme
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 140(45), 15190–15193.
Contributors: C. Yu n, Y. Tang *, L. Cha n , S. Milikisiyants n, n , A. Smirnov n , Y. Guo *, W. Chang n
MeSH headings : Alkenes / chemistry; Alkenes / metabolism; Biocatalysis; Decarboxylation; Molecular Structure; Nonheme Iron Proteins / metabolism
TL;DR:
Experimental observations imply that a pathway involving an initial C-H activation followed by a benzylic carbocation species or by electron transfer coupled β-scission is likely utilized to complete C═C bond formation.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: December 10, 2018
2018 journal article
Silica-Supported Lipid Bilayers: Electrostatic Effects at Lipid Interfaces as Reported by Spin-Labeling EPR
Biophysical Journal, 114(3), 96a.
Sources: Crossref, ORCID
Added: February 24, 2020
2018 journal article
Using Hyscore Spectroscopy of Nitroxides to Profile Water Content of Lipid Bilayers with 2 Å Spatial Resolution
Biophysical Journal, 114(3), 16a.
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Sources: Crossref, ORCID
Added: August 28, 2020
2017 journal article
Effects of Silica Support on Dynamics of Transmembrane Peptides and Effective p K a of Ionisable Sidechains
Biophysical Journal, 112(3), 175a.
Sources: Crossref, ORCID
Added: February 24, 2020
2017 journal article
Glycol Chitosan Engineered Autoregenerative Antioxidant Significantly Attenuates Pathological Damages in Models of Age-Related Macular Degeneration
ACS Nano, 11(5), 4669–4685.
Contributors: R. Mitra, R. Gao *, M. Zheng, M. Wu, M. Voinov n, A. Smirnov n , n , K. Wang, S. Chavala*, Z. Han
author keywords: age-related macular degeneration; cerium oxide nanoparticles; antioxidant; reactive oxygen species; laser-induced choroidal neovascularization
MeSH headings : Animals; Antioxidants / pharmacology; Cerium / chemistry; Cerium / pharmacology; Choroidal Neovascularization / drug therapy; Choroidal Neovascularization / prevention & control; Disease Models, Animal; Human Umbilical Vein Endothelial Cells; Humans; Macular Degeneration / physiopathology; Macular Degeneration / therapy; Male; Mice; Mice, Inbred C57BL; Oxidative Stress / drug effects; Reactive Oxygen Species / metabolism; Reactive Oxygen Species / pharmacology; Vascular Endothelial Growth Factor A / metabolism
TL;DR:
An engineered water-soluble, biocompatible, trackable nanoceria with enriched antioxidant activity to scavenge intracellular reactive oxygen species (ROS) is reported, which may offer a superior therapeutic effect to deal with oxidative stress induced pathogeneses, such as AMD.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018
2017 journal article
Oligomeric Structure of Anabaena Sensory Rhodopsin in a Lipid Bilayer Environment by Combining Solid-State NMR and Long-range DEER Constraints
JOURNAL OF MOLECULAR BIOLOGY, 429(12), 1903–1920.
Contributors: S. Milikisiyants n, S. Wang *, R. Munro*, M. Donohue n, M. Ward*, D. Bolton*, L. Brown *, n , V. Ladizhansky *, A. Smirnov n
author keywords: double electron electron resonance (DEER); site-directed spin labeling; solid-state NMR; paramagnetic relaxation enhancement; membrane protein structure
MeSH headings : Anabaena / chemistry; Lipid Bilayers / chemistry; Magnetic Resonance Spectroscopy; Membrane Proteins / chemistry; Membrane Proteins / metabolism; Models, Biological; Models, Molecular; Protein Multimerization; Sensory Rhodopsins / chemistry; Sensory Rhodopsins / metabolism
TL;DR:
The combined approach of using complementary DEER and NMR measurements for the determination of oligomeric structures would be widely applicable to membrane proteins where paramagnetic tags can be introduced.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2017 journal article
Oxidation of pyrrole by dehaloperoxidase-hemoglobin: chemoenzymatic synthesis of pyrrolin-2-ones
CATALYSIS SCIENCE & TECHNOLOGY, 7(14), 3104–3118.
TL;DR:
The results demonstrate the breadth of chemical reactivity afforded by dehaloperoxidase, and provide further evidence for establishing DHP as a multifunctional globin with practical applications as a biocatalyst.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2016 journal article
Synthesis of New Mixed-Metal Ammonium Vanadates: Cation Order versus Disorder, and Optical and Photocatalytic Properties
CRYSTAL GROWTH & DESIGN, 16(10), 5762–5770.
Sources: Web Of Science, ORCID
Added: August 6, 2018
2016 journal article
The Hydroxyl Radical is a Critical Intermediate in the Voltammetric Detection of Hydrogen Peroxide
Journal of the American Chemical Society, 138(8), 2516–2519.
Contributors: J. Roberts n, M. Voinov n, A. Schmidt n, n & L. Sombers n
MeSH headings : Electrochemical Techniques / methods; Electron Spin Resonance Spectroscopy / methods; Hydrogen Peroxide / analysis; Hydrogen Peroxide / chemistry; Hydroxyl Radical / analysis; Hydroxyl Radical / chemistry; Pyrroles / chemistry; Spin Labels
TL;DR:
Voltammetry was combined with electron paramagnetic resonance spectroscopy to identify and define the role of an oxygen-centered radical liberated during the oxidation of H2O2, and it was demonstrated that the hydroxyl radical is a principal contributor to the voltammetry of H1O2 as signal is attenuated when this species is trapped.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018
2016 journal article
smFRET and DEER Distance Measurements as Applied to Disordered and Structured Proteins
Biophysical Journal, 110(3), 559a.
TL;DR:
Single molecule (sm) FRET reports on conformation of individual protein molecules whereas DEER provides information on ensemble average while the distance ranges of these two methods overlaps, and direct comparison of FRET and DEER data is rarely found in the literature.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Crossref, ORCID
Added: February 5, 2020
2015 journal article
Determining Oligomeric Order of a Membrane Protein by Double Electron-Electron Resonance Spectroscopy
Biophysical Journal, 108(2), 93a.
TL;DR:
The use of spin-labeling and Double Electron-Electron Resonance (DEER) spectroscopy to determine the oligomeric order of a membrane protein and the results demonstrate that DEER restraints can not only differentiate between the dimer and trimer models that have very different interfaces, but further rule out hypothetical tetramer and other higher order polygon models.
(via Semantic Scholar)
Sources: Crossref, ORCID
Added: February 24, 2020
2015 journal article
Ferromagnetic coupling in d(1)-d(3) linear oxido-bridged heterometallic complexes: ground-state models of metal-to-metal charge transfer excited states
DALTON TRANSACTIONS, 44(43), 18937–18944.
TL;DR:
A model that links either ferromagnetic or antiferromagentic exchange coupling with long excited state lifetimes in metal-to-metal charge transfer (MMCT) chromophores is proposed.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2015 journal article
Manganese-Vanadate Hybrids: Impact of Organic Ligands on Their Structures, Thermal Stabilities, Optical Properties, and Photocatalytic Activities
INORGANIC CHEMISTRY, 54(15), 7388–7401.
TL;DR:
Manganese(II)-vanadate(V)/organic hybrids were prepared in high purity using four different N-donor organic ligands and their crystalline structures, thermal stabilities, optical properties, photocatalytic activities and electronic structures were investigated as a function of the organic ligand.
(via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2015 journal article
“Snorkeling” of the Charged Sidechain of a Transmembrane Peptide as Directly Observed by Double Electron-Electron Resonance Experiment
Biophysical Journal, 108(2), 203a.
TL;DR:
Experimental observations of “snorkeling” for nitroxide-modified side-chains upon protonation, its dependence upon the location along the transmembrane peptide helix, and how this snorkeling is affected by the membrane electrostatic surface potential are reported.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy
(OpenAlex)
Sources: Crossref, ORCID
Added: August 28, 2020
2014 journal article
Copper-Organic/Octamolybdates: Structures, Bandgap Sizes, and Photocatalytic Activities
Inorganic Chemistry, 53(7), 3464–3470.
TL;DR:
The structures, optical bandgap sizes, and photocatalytic activities are described for three copper-octamolybdate hybrid solids prepared using hydrothermal methods, and the dissolution of the clusters in III is found to occur with the reduction of Cu(II) to Cu(I), followed by subsequent detachment from the octamoly bdate cluster.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Sources: Crossref, ORCID, Web Of Science
Added: August 6, 2018
2014 journal article
Identification of free radicals in pyrolysis oil and their impact on bio-oil stability
RSC ADVANCES, 4(56), 29840–29846.
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2014 journal article
Profiling the Dielectric Constant at the Membrane-Peptide Interface using Ionizable EPR Probes
Biophysical Journal, 106(2), 508a.
TL;DR:
This work reports on employing pH-sensitive ionizable EPR labels to profile a heterogeneous dielectric environment along the α-helix of a WALP peptide integrated in a lipid bilayer, and for the first time measurements of local electrostatics at peptide-bilayer interface were based on direct distance measurements rather than on assumptions on the probe location.
(via Semantic Scholar)
Sources: Crossref, ORCID
Added: February 24, 2020
2014 journal article
Structure, Dynamics, and Electrostatic Effects on Membrane Binding of Nod Peptides
Biophysical Journal, 106(2), 295a.
TL;DR:
Three peptides mimicking the sequence thought to be responsible for the targeted membrane binding containing single Cys substitutions are synthesized and substantial differences in binding behavior of these charged peptides were observed despite the similarity in sequences.
(via Semantic Scholar)
Sources: Crossref, ORCID
Added: February 24, 2020
2013 journal article
Isoprenoid Biosynthesis: Ferraoxetane or Allyl Anion Mechanism for IspH Catalysis?
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION, 52(25), 6522–6525.
author keywords: biosynthesis; enzyme catalysis; iron-sulfur cluster; metalloproteins; terpenes
MeSH headings : Anions; Catalysis; Ferric Compounds / metabolism; Models, Molecular; Proteins / metabolism; Terpenes / metabolism
TL;DR:
In plant plastids, IPP and DMAPP are produced primarily via the 2-C-methylerythritol 4-phosphate (MEP) pathway from E-1-hydroxy- 2-methyl-but-2-enyl 4-diph phosphate (HMBPP) in a reaction catalyzed by the enzyme IspH, and this route is also used in most bacteria, as well as in malaria parasites.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
6. Clean Water and Sanitation
(OpenAlex)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2013 journal article
Molecular pH Probes at a Protein-Lipid Interface: Assessment of Local Dielectric Environment for Transmembrane Peptide
Biophysical Journal, 104(2), 373a.
TL;DR:
Measurements of local electrostatics at peptide-bilayer interface were based on direct distance measurements rather than on assumptions on the probe location, allowing us to estimate effective dielectric constant.
(via Semantic Scholar)
Sources: Crossref, ORCID
Added: February 24, 2020
2013 journal article
The UDP-diacylglucosamine Pyrophosphohydrolase LpxH in Lipid A Biosynthesis Utilizes Mn2+ Cluster for Catalysis
JOURNAL OF BIOLOGICAL CHEMISTRY, 288(38), 26987–27001.
Contributors: H. Young*, M. Donohue n, n , A. Smirnov n & P. Zhou *
MeSH headings : Bacterial Proteins / chemistry; Bacterial Proteins / genetics; Bacterial Proteins / isolation & purification; Bacterial Proteins / metabolism; Catalysis; Cloning, Molecular; Gene Expression; Haemophilus influenzae / enzymology; Haemophilus influenzae / genetics; Lipid A / biosynthesis; Lipid A / chemistry; Lipid A / metabolism; Manganese / chemistry; Manganese / metabolism; Pyrophosphatases / chemistry; Pyrophosphatases / genetics; Pyrophosphatases / isolation & purification; Pyrophosphatases / metabolism
TL;DR:
Overall, this work unambiguously establishes LpxH as a calcineurin-like phosphoesterase containing a Mn2+ cluster coordinated by conserved residues, which sets the scene for further structural investigation of the enzyme and for design of novel antibiotics targeting lipid A biosynthesis.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2013 journal article
Tyrosyl Radicals in Dehaloperoxidase
Journal of Biological Chemistry, 288(46), 33470–33482.
Contributors: R. Dumarieh n, . J. D'Antonio, A. Deliz-Liang n, n , D. Svistunenko * & R. Ghiladi n
author keywords: Hemoglobin; Iron; Peroxidase; Radicals; Tyrosine; Compound ES; Compound I; Compound II; Dehaloperoxidase; Ferryl
MeSH headings : Adaptation, Physiological; Animals; Hemoglobins / chemistry; Hemoglobins / genetics; Hemoglobins / metabolism; Oxidation-Reduction; Oxygen / chemistry; Oxygen / metabolism; Peroxidase / chemistry; Peroxidase / genetics; Peroxidase / metabolism; Peroxidases / chemistry; Peroxidases / genetics; Peroxidases / metabolism; Polychaeta / enzymology; Protein Binding; Tyrosine / analogs & derivatives; Tyrosine / chemistry; Tyrosine / genetics; Tyrosine / metabolism
TL;DR:
The results indicate that radicals form on all three tyrosines in DHP, likely an evolutionary adaptation allowing DHP to avoid self-inflicted damage in the oxidative environment.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Crossref, ORCID
Added: February 24, 2020
2013 journal article
Tyrosyl radicals in dehaloperoxidase how nature deals with evolving an oxygen-binding globin to a biologically relevant peroxidase
Journal of Biological Chemistry, 288(46), 33470–33482.
Source: NC State University Libraries
Added: August 6, 2018
2012 journal article
Probing Dielectric and Hydrogen Bonding Gradients in Biological Membranes
Biophysical Journal, 102(3), 414a.
TL;DR:
An arsenal of advanced spin-labeling EPR methods are employed to profile heterogeneous dielectric and hydrogen bonding environment along the α-helical chain of an alanine-rich WALP peptide that is anchored in a lipid bilayer in a transmembrane orientation.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Sources: Crossref, ORCID
Added: February 24, 2020
2011 journal article
An ENDOR and HYSCORE Investigation of a Reaction Intermediate in IspG (GcpE) Catalysis
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 133(22), 8400–8403.
MeSH headings : Alkyl and Aryl Transferases / biosynthesis; Alkyl and Aryl Transferases / chemistry; Catalysis; Electron Spin Resonance Spectroscopy; Enzymes / chemistry; Models, Molecular; Molecular Structure
TL;DR:
Using electron-nuclear double resonance and hyperfine sublevel correlation spectroscopies on labeled samples, results help clarify the nature of the reaction intermediate, supporting a direct interaction between the unique fourth Fe in the cluster and C2 and O3 of the ligand.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2011 journal article
Pyridine Inhibitor Binding to the 4Fe-4S Protein A. aeolicus IspH (LytB): A HYSCORE Investigation
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 133(17), 6525–6528.
MeSH headings : Anti-Bacterial Agents / chemistry; Anti-Bacterial Agents / pharmacology; Bacteria / drug effects; Bacteria / metabolism; Bacterial Proteins / metabolism; Drug Design; Iron-Sulfur Proteins / metabolism; Models, Molecular; Protein Binding; Pyridines / chemistry; Pyridines / pharmacology; Terpenes / metabolism
TL;DR:
It is shown that pyridine inhibitors of IspH directly bind to the unique fourth Fe in the 4Fe-4S cluster, opening up new routes to inhibitor design, of interest in the context of both anti-bacterial as well as anti-malarial drug discovery.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2011 journal article
Resurrection of a functional phosphatidylinositol transfer protein from a pseudo-Sec14 scaffold by directed evolution
MOLECULAR BIOLOGY OF THE CELL, 22(6), 892–905.
MeSH headings : Amino Acid Sequence; Cell Cycle Proteins / chemistry; Cell Cycle Proteins / genetics; Cell Cycle Proteins / metabolism; Chromosomal Proteins, Non-Histone / chemistry; Chromosomal Proteins, Non-Histone / genetics; Chromosomal Proteins, Non-Histone / metabolism; Directed Molecular Evolution; Endosomes / metabolism; Golgi Apparatus / metabolism; Models, Molecular; Molecular Dynamics Simulation; Molecular Sequence Data; Phenotype; Phosphatidylcholines / chemistry; Phosphatidylcholines / metabolism; Phosphatidylinositols / chemistry; Phosphatidylinositols / metabolism; Phospholipid Transfer Proteins / chemistry; Phospholipid Transfer Proteins / genetics; Phospholipid Transfer Proteins / metabolism; Protein Conformation; Saccharomyces cerevisiae / cytology; Saccharomyces cerevisiae / genetics; Saccharomyces cerevisiae / metabolism; Saccharomyces cerevisiae Proteins / chemistry; Saccharomyces cerevisiae Proteins / genetics; Saccharomyces cerevisiae Proteins / metabolism; Sequence Alignment; Signal Transduction; trans-Golgi Network / metabolism
TL;DR:
A directed evolution approach is used as a novel prism through which the functional engineering of a Sec14-like phosphatidylinositol transfer protein can be observed.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
6. Clean Water and Sanitation
(OpenAlex)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2011 journal article
Role of Electrostatic and Hydrogen Bonding Environment in Sequestering Lipids from Membranes Into the Sec14 Protein Cavity
Biophysical Journal, 100(3), 552a–553a.
TL;DR:
An arsenal of advanced spin-labeling EPR methods are employed to probe local electrostatic and hydrogen bonding environment that govern binding of lipids by Sec14 protein and indicate that the phospholipid-binding cavity of Sec14p with the likely sequestered water molecules provides a close match for the polarity profile along the bound PtdCho molecule and the one determined for membrane bilayers.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy
(OpenAlex)
Sources: Crossref, ORCID
Added: February 24, 2020
2011 journal article
Surface-Mediated Production of Hydroxyl Radicals as a Mechanism of Iron Oxide Nanoparticle Biotoxicity
Journal of the American Chemical Society, 133(1), 35–41.
Contributors: M. Voinov n, J. Pagán n, E. Morrison n, n & A. Smirnov n
MeSH headings : Animals; Catalysis; Cattle; Cell Survival / drug effects; Electron Spin Resonance Spectroscopy; Ferric Compounds / chemistry; Ferric Compounds / toxicity; HeLa Cells; Humans; Hydrogen Peroxide / chemistry; Hydroxyl Radical / chemistry; Iron / chemistry; Nanoparticles / chemistry; Nanoparticles / toxicity; Oleic Acid / chemistry; Serum Albumin, Bovine / chemistry; Surface Properties
TL;DR:
The experimental protocols developed in this study could be used as one of the approaches for developing analytical assays for assessing the free radical generating activity of a variety of nanomaterials that is potentially related to their biotoxicity.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018
2010 journal article
Heterogeneous Dielectric and Hydrogen Bonding Environment of Transmembrane Peptides
Biophysical Journal, 98(3), 87a.
TL;DR:
It was concluded that such combination of EPR techniques significantly expands the capabilities of spin-labeling methods in studies of membrane proteins as demonstrated by deriving profiles of heterogeneous dielectric and hydrogen bonding environment along a typical transmembrane alpha-helix.
(via Semantic Scholar)
Sources: Crossref, ORCID
Added: February 24, 2020
2010 journal article
Spectroscopic and Mechanistic Investigations of Dehaloperoxidase B fromAmphitrite ornata
Biochemistry, 49(31), 6600–6616.
Contributors: . J. D'Antonio, . E.L. D'Antonio n, M. Thompson n, E. Bowden n , S. Franzen n , n , R. Ghiladi n
MeSH headings : Animals; Cloning, Molecular; Halogenation; Hemoglobins; Iron; Kinetics; Oxidation-Reduction; Oxygen / metabolism; Peroxidases / genetics; Peroxidases / metabolism; Polychaeta / enzymology; Spectrum Analysis
TL;DR:
A novel reaction pathway is demonstrated in which the products of the oxidative dehalogenation of trihalophenols (dihaloquinones) are themselves capable of inducing formation of oxyferrous DHP B, and an updated catalytic cycle for DHP is proposed.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018
2009 journal article
Characterization of Dehaloperoxidase Compound ES and Its Reactivity with Trihalophenols†
Biochemistry, 48(5), 995–1005.
Contributors: J. Feducia n , R. Dumarieh n, L. Gilvey n, n , S. Franzen n & R. Ghiladi n
MeSH headings : Animals; Binding Sites; Chlorophenols / chemistry; Chlorophenols / metabolism; Crystallography, X-Ray; Cytochrome-c Peroxidase / chemistry; Cytochrome-c Peroxidase / metabolism; Electron Transport Complex IV / chemistry; Electron Transport Complex IV / metabolism; Hemoglobins / chemistry; Hemoglobins / metabolism; Peroxidases / chemistry; Peroxidases / metabolism; Polychaeta / enzymology
TL;DR:
It is demonstrated that the first detectable intermediate following the addition of hydrogen peroxide to ferric DHP contains both a ferryl heme and a tyrosyl radical, analogous to Compound ES of cytochrome c peroxidase.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018
2009 journal article
Membrane insertion of peptides mimicking E2 domain of Sindbis virus is modulated by cholesterol
Biophysical Journal, 96(3), 389a–390a.
TL;DR:
Investigation of the interaction of synthetic peptides mimicking E2 domain mutants with lipid bilayers with the goal to understand constraints placed upon membrane spanning domains for correct integration into the bilayer shows that cholesterol content of the lipid mixture modulates insertion of the peptides into bilayer mimicking mammalian cell membrane.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Crossref, ORCID
Added: February 24, 2020
2009 journal article
Spectroscopic Probes of the Reactive Intermediates of Dehaloperoxidase from Amphitrite ornata
Biophysical Journal, 96(3), 437a.
TL;DR:
While unreactive toward further oxidation, Compound RH can be reduced and subsequently bind dioxygen, generating oxyferrous DHP, which may represent the catalytic link between the peroxidase and oxygen-transport activities in this bifunctional protein.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
14. Life Below Water
(OpenAlex)
Sources: Crossref, ORCID
Added: February 24, 2020
2009 journal article
Substrate binding triggers a switch in the iron coordination in dehaloperoxidase from Amphitrite Ornate
Biophysical Journal, 96(3), 437a.
TL;DR:
Hyperfine sublevel correlation spectroscopic analysis of the ferric form of DHP was carried out to characterize effects of the substrate 2,4,6-trifluorophenol (TFP) binding on the iron coordination in order to elucidate molecular mechanisms responsible for switching the protein function from a globin to a peroxidase.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Sources: Crossref, ORCID
Added: February 24, 2020
2008 journal article
Characterization of magnetic and electronic properties of trimetallic nitride endohedral fullerenes by SQUID magnetometry and electron paramagnetic resonance
CHEMICAL PHYSICS LETTERS, 453(4-6), 233–237.
Contributors: n , A. Smirnov n , T. Chadwick n & K. Walker*
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2008 journal article
Substrate binding triggers a switch in the iron coordination in dehaloperoxidase from Amphitrite ornata: HYSCORE experiments
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 130(7), 2128-+.
MeSH headings : Animals; Electron Spin Resonance Spectroscopy; Ferric Compounds / chemistry; Ferric Compounds / metabolism; Heme / chemistry; Heme / metabolism; Hemoglobins / chemistry; Hemoglobins / metabolism; Iron / chemistry; Iron / metabolism; Models, Molecular; Peroxidases / chemistry; Peroxidases / metabolism; Polychaeta / enzymology; Protein Binding; Spectrum Analysis / methods; Water / chemistry; Water / metabolism
TL;DR:
Continuous wave EPR spectra show that heme iron of DHP at pH 6.0 exists in the high spin state, consistent with a water molecule being the sixth ligand in the iron coordination, and highlights the proposed role of the substrate as a trigger for the switch from hemoglobin to peroxidase.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
6. Clean Water and Sanitation
(OpenAlex)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2007 journal article
Binding of MRI contrast agents to albumin: a high-field EPR study
APPLIED MAGNETIC RESONANCE, 31(3-4), 431–446.
TL;DR:
Analysis of the line width broadening effects for spectra from a series ofn-doxyl-stearic acids bound to HSA indicated a progressive decrease of spin label-Gd(III) magnetic interactions along the fatty acid (FA) binding channel, consistent with binding of Gd-DOTAP complex in the vicinity of the main FA binding site.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2007 journal article
Geometry of hydrogen bonds formed by lipid bilayer nitroxide probes: A high-frequency pulsed ENDOR/EPR study
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 129(12), 3476-+.
Contributors: n , A. Smirnov n , S. Paschenko n & O. Poluektov n
MeSH headings : Electron Spin Resonance Spectroscopy; Hydrogen Bonding; Lipid Bilayers / chemistry; Molecular Structure; Nitrogen Oxides / chemistry
TL;DR:
The hypothesis that HF EPR spectra are exclusively sensitive to formation of hydrogen bonds and could be used for probing the hydrogen bond network in complex biomolecular assemblies and lipid bilayers with site-directed spin-labeling methods is strengthened.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
6. Clean Water and Sanitation
(OpenAlex)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2007 journal article
Local polarity and hydrogen bonding inside the Sec14p phospholipid-binding cavity: High-field multi-frequency electron paramagnetic resonance studies
BIOPHYSICAL JOURNAL, 92(10), 3686–3695.
Contributors: n , T. Chadwick n, M. Voinov n, O. Poluektov *, J. Van Tol *, A. Ozarowski*, G. Schaaf *, M. Ryan*, V. Bankaitis *
MeSH headings : Binding Sites; Computer Simulation; Electron Spin Resonance Spectroscopy / methods; Hydrogen Bonding; Models, Chemical; Models, Molecular; Phospholipid Transfer Proteins / chemistry; Phospholipids / chemistry; Protein Binding; Saccharomyces cerevisiae Proteins / chemistry; Solvents / chemistry; Static Electricity
TL;DR:
The data suggest the polarity gradient inside the Sec14p cavity is a significant contributor to the driving molecular forces for extracting a phospholipid from the bilayer and the enhanced g-factor resolution of EPR provides researchers with a spectroscopic tool to deconvolute two major contributions to the x-component of the nitroxide g-matrix: hydrogen-bond formation and local electrostatic effects.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2006 journal article
Cryogen-free superconducting magnet system for multifrequency electron paramagnetic resonance up to 12.1T
Review of Scientific Instruments, 77(3), 035108.
Contributors: A. Smirnov n , n , R. MacArthur n, J. Good & R. Hall
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy
(OpenAlex)
Sources: Crossref, ORCID, NC State University Libraries
Added: August 6, 2018
2006 journal article
The chemistry of phospholipid binding by the Saccharomyces cerevisiae phosphatidylinositol transfer protein Sec14p as determined by EPR spectroscopy
JOURNAL OF BIOLOGICAL CHEMISTRY, 281(46), 34897–34908.
MeSH headings : Binding Sites; Gene Expression Regulation; Models, Molecular; Molecular Structure; Phosphatidylcholines / chemistry; Phosphatidylcholines / metabolism; Phospholipid Transfer Proteins / chemistry; Phospholipid Transfer Proteins / metabolism; Phospholipids / chemistry; Phospholipids / metabolism; Protein Binding; Saccharomyces cerevisiae / metabolism; Saccharomyces cerevisiae Proteins / chemistry; Saccharomyces cerevisiae Proteins / metabolism; Spectrometry, Mass, Electrospray Ionization / methods
TL;DR:
The application of EPR spectroscopy is described to probe the local dynamics and the electrostatic microenvironment of phosphatidylcholine bound by Sec14p in a soluble protein-PtdCho complex and suggests a headgroup-out orientation ofSec14p-bound PtdCho.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2003 journal article
Dynamic molecular oxygen accessibility to a buried Mn2+ protein site: A high-field EPR experiment
JOURNAL OF PHYSICAL CHEMISTRY B, 107(29), 7212–7215.
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
2001 journal article
Resolving domains of interdigitated phospholipid membranes with 95 GHz spin labeling EPR
APPLIED MAGNETIC RESONANCE, 21(3-4), 453–467.
Contributors: A. Smirnov n & n
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
1998 journal article
Multi-frequency EPR determination of zero field splitting of high spin species in liquids: Gd(III) chelates in water
Molecular Physics, 95(6), 1325–1332.
Contributors: R. Clarkson*, A. Smirnov* , * , H. Kang*, R. Belford*, K. Earle*, J. Freed *
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Sources: Crossref, ORCID
Added: August 28, 2020
Employment
Updated: August 11th, 2021 19:08
North Carolina State University Raleigh, North Carolina, US
Associate Professor
Chemistry
Education
Updated: September 30th, 2022 17:47
University of Illinois Urbana-Champaign Urbana, Illinois, US
PhD
Chemistry
1997 - 2000
University of Illinois Urbana-Champaign Urbana, Illinois, US
Postdoctoral Fellow
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