A5033465444- Earthquake Detection and Analysis
- Methane Hydrates and Related Phenomena
- Seismic Waves and Analysis
- DNA and Nucleic Acid Chemistry
- Ionosphere and magnetosphere dynamics
- DNA Repair Mechanisms
- Enzyme Structure and Function
- Bone and Dental Protein Studies
- Tuberculosis Research and Epidemiology
- Protein Structure and Dynamics
- Computational Drug Discovery Methods
- Biochemical and Molecular Research
- Oral microbiology and periodontitis research
- RNA and protein synthesis mechanisms
- Antimicrobial Peptides and Activities
- Biochemical and Structural Characterization
- Periodontal Regeneration and Treatments
- Burkholderia infections and melioidosis
- Chemical Synthesis and Analysis
- Metal complexes synthesis and properties
- Metalloenzymes and iron-sulfur proteins
- Botulinum Toxin and Related Neurological Disorders
- Neurological disorders and treatments
- Bacteriophages and microbial interactions
- Trace Elements in Health
Pacific Northwest National Laboratory
2016-2025
Washington State University
2017-2025
Center for Infectious Disease Research
2013-2022
Seattle University
2015-2021
Joint Center for Structural Genomics
2011-2018
University of Washington
2018
Richland College
2017
Weatherford College
2017
Genomics (United Kingdom)
2017
Battelle
2010
Single-stranded DNA constrained on a graphene surface is effectively protected from enzymatic cleavage by DNase I. Various spectroscopy studies suggest that the single-stranded promptly adsorbed onto forming strong molecular interactions. Constraint of probe improves specificity its response to complementary DNA. Detailed facts importance specialist readers are published as "Supporting Information". Such documents peer-reviewed, but not copy-edited or typeset. They made available submitted...
ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXT2,2-Diamino-4-[(3,5-di-O-acetyl-2-deoxy-.beta.-D-erythro- pentofuranosyl)amino]-5-(2H)-oxazolone: a Novel and Predominant Radical Oxidation Product of 3',5'-Di-O-acetyl-2'-deoxyguanosineJean Cadet, Maurice Berger, Garry W. Buchko, Prakash C. Joshi, Sebastien Raoul, Jean-Luc RavanatCite this: J. Am. Chem. Soc. 1994, 116, 16, 7403–7404Publication Date (Print):August 1, 1994Publication History Published online1 May 2002Published inissue 1 August...
The genus Burkholderia includes pathogenic gram-negative bacteria that cause melioidosis, glanders, and pulmonary infections of patients with cancer cystic fibrosis. Drug resistance has made development new antimicrobials critical. Many approaches to discovering antimicrobials, such as structure-based drug design whole cell phenotypic screens followed by lead refinement, require high-resolution structures proteins essential the parasite.We experimentally identified 406 putative genes in B....
MtDef4 is a 47-amino acid cysteine-rich evolutionary conserved defensin from model legume Medicago truncatula. It an apoplast-localized plant defense protein that inhibits the growth of ascomycetous fungal pathogen Fusarium graminearum in vitro at micromolar concentrations. Little known about mechanisms by which mediates its antifungal activity. In this study, we show rapidly permeabilizes plasma membrane and internalized cells where it accumulates cytoplasm. Furthermore, analysis structure...
Metagenomics is unearthing the previously hidden world of soil viruses. Many viral sequences in metagenomes contain putative auxiliary metabolic genes (AMGs) that are not associated with replication. Here, we establish AMGs on viruses actually produce functional, active proteins. We focus potentially encode chitosanase enzymes metabolize chitin - a common carbon polymer. express and functionally screen several identified from environmental metagenomes. One expressed protein showing...
In the indeterminate nodules of a model legume Medicago truncatula, ∼700 nodule-specific cysteine-rich (NCR) peptides with conserved cysteine signature are expressed. NCR highly diverse in sequence, and some these cationic exhibit antimicrobial activity vitro vivo. However, there is lack knowledge regarding their structural architecture, antifungal activity, modes action against plant fungal pathogens. Here, three-dimensional NMR structure 36-amino acid NCR044 peptide was solved. This unique...
SARS-CoV-2 has caused a global pandemic, and taken over 1.7 million lives as of mid-December, 2020. Although great progress been made in the development effective countermeasures, with several pharmaceutical companies approved or poised to deliver vaccines market, there is still an unmet need essential antiviral drugs therapeutic impact for treatment moderate-to-severe COVID-19. Towards this goal, high-throughput assay was used screen nsp15 uracil-dependent endonuclease (endoU) function...
Abstract Chemical fungicides have been instrumental in protecting crops from fungal diseases. However, increasing resistance to many of the single‐site chemical calls for development new antifungal agents with novel modes action (MoA). The sequence‐divergent cysteine‐rich defensins multisite MoA are promising starting templates design peptide‐based fungicides. Here, we experimentally tested such a set 17‐amino‐acid peptides containing γ‐core motif plant defensin MtDef4. These designed...
The two primary one-electron oxidation and ˙OH-mediated decomposition products of 2′-deoxyguanosine 1 are 2,2-diamino-4-[(2-deoxy-β-D-erythro-pentofuranosyl)amino]-2,5-dihydrooxazol-5-one 3 (dZ) its precursor, 2-amino-5-[(2-deoxy-β-D-erythro-pentofuranosyl)amino]-4H-imidazol-4-one 2 (dIz). Here, we describe in detail the spectroscopic chemical properties both oxidative DNA lesions. structures for dZ dIz were determined by fast-atom bombardment mass spectrometry, UV spectroscopy, IR together...
The Seattle Structural Genomics Center for Infectious Disease (SSGCID) is a consortium of researchers at BioMed, Emerald BioStructures, the University Washington and Pacific Northwest National Laboratory that was established to apply structural genomics approaches drug targets from infectious disease organisms. SSGCID currently funded over five-year period by Institute Allergy Diseases (NIAID) determine three-dimensional structures 400 proteins variety Category A, B C pathogens. Target...
Inspired by the contribution of protein scaffold to efficiency with which enzymes function, we used outer coordination sphere features develop a molecular electrocatalyst for reversible production/oxidation H2 at 25 °C: [Ni(PCy2NPhe2)2]2+ (CyPhe; PR2NR′2 = 1,5-diaza-3,7-diphosphacyclooctane, Cy cyclohexyl, Phe phenylalanine). Electrocatalytic reversibility is observed in aqueous, acidic methanol. The aromatic rings peripheral phenylalanine groups appear be essential achieving based on...
Microbial expansin-related proteins include fungal loosenins, which have been previously shown to disrupt cellulose networks and enhance the enzymatic conversion of cellulosic substrates. Despite showing beneficial impacts processing, detailed characterization materials after loosenin treatment is lacking. In this study, small-angle neutron scattering (SANS) was used investigate effects three recombinantly produced loosenins that originate from Phanerochaete carnosa, PcaLOOL7, PcaLOOL9,...
Human XPA is an essential component in the multienzyme nucleotide excision repair (NER) pathway. The solution structure of minimal DNA binding domain (XPA-MBD: M98-F219) was recently determined [Buchko et al. (1998) Nucleic Acids Res. 26, 2779−2788, Ikegami Nat. Struct. Biol. 5, 701−706] and shown to consist a compact zinc-binding core loop-rich C-terminal subdomain connected by linker sequence. Here, XPA-MBD further refined using entirely new class restraints based on pseudocontact shifts...
XPA, an essential protein in nucleotide excision repair (NER), interacts with damaged DNA and other proteins (RPA, ERCC1 TFIIH) to remove a wide variety of chemically structurally distinct lesions from the eukaryotic genome. To understand structural basis for role XPA process, structure minimal binding domain human [XPA-MBD (M98-F219)] was studied by NMR spectroscopy. A three-dimensional XPA-MBD generated using distance geometry simulated annealing methods NOE-based restraints, hydrogen bond...
Many pathogenic Gram-negative bacteria use a type III secretion system (T3SS) to deliver effector proteins into the host cell where they reprogram defenses and facilitate pathogenesis. The first 20-30 N-terminal residues usually contain 'secretion signal' that targets for translocation, however, consensus sequence motif has never been discerned. Recent machine-learning approaches, such as support vector machine (SVM)-based Identification Evaluation of Virulence Effectors (SIEVE), have...
The utilization of CO2 to generate chemical fuels, such as formic acid, is a potentially beneficial route balance carbon emissions and reduce dependence on fossil fuels. development efficient catalysts for hydrogenation needed implement this fuel generation. In the molecular catalyst design presented here, we covalently attached rhodium complex, ([RhI(PNglyP)2]−, where PNglyP defined PEt2–CH2–N(CH2CO2–)–CH2–PEt2) protein scaffold, (lactococcal multidrug resistant regulator from Lactococcus...
Abstract Catalytic, peptide‐containing metal complexes with a well‐defined peptide structure have the potential to enhance molecular catalysts through an enzyme‐like outer coordination sphere. Here, we report synthesis and characterization of active, peptide‐based complex built upon well‐characterized hydrogen production catalyst [Ni(P Ph 2 N ) ] 2+ (P =1,3,6‐triphenyl‐1‐aza‐3,6‐diphosphacycloheptane). The incorporated maintains its β‐hairpin when appended core, electrocatalytic activity...
SARS-CoV-2 is the agent responsible for acute respiratory disease COVID-19 and global pandemic initiated in early 2020. While record-breaking development of vaccines has assisted control COVID-19, there still a pressing demand antiviral drugs to halt destructive impact this disease. Repurposing clinically approved provides an opportunity expediate treatments into clinic. In effort facilitate drug repurposing, FDA-approved library containing 2400 compounds was screened against non-structural...
ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTConformation of Two Peptides Corresponding to Human Apolipoprotein C-I Residues 7-24 and 35-53 in the Presence Sodium Dodecyl Sulfate by CD NMR SpectroscopyAnnett Rozek, Garry W. Buchko, Robert J. CushleyCite this: Biochemistry 1995, 34, 22, 7401–7408Publication Date (Print):June 6, 1995Publication History Published online1 May 2002Published inissue 6 June 1995https://doi.org/10.1021/bi00022a013RIGHTS & PERMISSIONSArticle...
A major product of the radiation-induced decompostion 2′-deoxyguanosine in oxygen-saturated aqueous solution has been isolated by reverse phase high performance liquid chromatography and characterized carbon proton NMR spectroscopy, fast-atom bombardment mass spectrometry, chemical analysis as (2S)-2,5′-anhydro-1-(2′-deoxy-β-d-erythro-pentofuranosyl)-5-guanidinylidene-2-hydroxy-4-oxoimidazolidine(d < G). This compound is stable at room temperature but decomposes upon heating (45°C). The...
Using solution-state NMR spectroscopy, new insights into the early events governing amelogenin supramolecular self-assembly have been identified using sodium chloride and calcium to trigger association. Two-dimensional 1H−15N HSQC spectra were recorded for 15N- 13C-labeled murine as a function of increasing NaCl CaCl2 concentration beginning with solution conditions 2% acetic acid at pH 3.0, where was monomeric. Residue specific changes in molecular dynamics, manifested by reduction...