Nicholas R. Silvaggi, Ph.D. - Publications

Affiliations: 
2003 University of Connecticut, Storrs, CT, United States 
Area:
General Biophysics, Biochemistry, Pharmacology

42 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2021 Turner LD, Nielsen AL, Lin L, Campedelli AJ, Silvaggi NR, Chen JS, Wakefield AE, Allen KN, Janda KD. Use of Crystallography and Molecular Modeling for the Inhibition of the Botulinum Neurotoxin A Protease. Acs Medicinal Chemistry Letters. 12: 1318-1324. PMID 34413962 DOI: 10.1021/acsmedchemlett.1c00325  1
2020 Virdi RS, Bavisotto RV, Hopper NC, Vuksanovic N, Melkonian TR, Silvaggi NR, Frick DN. Discovery of Drug-Like Ligands for the Mac1 Domain of SARS-CoV-2 Nsp3. Slas Discovery : Advancing Life Sciences R & D. 2472555220960428. PMID 32981460 DOI: 10.1177/2472555220960428  1
2020 Roman JV, Melkonian TR, Silvaggi NR, Moran GR. Correction to "Transient-State Analysis of Human Isocitrate Dehydrogenase I: Accounting for the Interconversion of Active and Non-Active Conformational States". Biochemistry. PMID 32847354 DOI: 10.1021/acs.biochem.0c00649  1
2020 Vuksanovic N, Zhu X, Serrano DA, Siitonen V, Metsä-Ketelä M, Melançon CE, Silvaggi NR. Structural characterization of three noncanonical NTF2-like superfamily proteins: implications for polyketide biosynthesis. Acta Crystallographica. Section F, Structural Biology Communications. 76: 372-383. PMID 32744249 DOI: 10.1107/S2053230X20009814  1
2020 Frick DN, Virdi RS, Vuksanovic N, Dahal N, Silvaggi NR. Molecular Basis for ADP-Ribose Binding to the Mac1 Domain of SARS-CoV-2 nsp3. Biochemistry. PMID 32578982 DOI: 10.1021/Acs.Biochem.0C00309  1
2019 Mydy LS, Hoppe RW, Hagemann TM, Schwabacher AW, Silvaggi NR. Correction to "Mechanistic Studies of the Aldolase-Dehydratase: Implications for Substrate and Reaction Specificity in the Acetoacetate Decarboxylase-like Superfamily". Biochemistry. 58: 5022. PMID 31790220 DOI: 10.1021/acs.biochem.9b00984  1
2019 Han L, Vuksanovic N, Oehm SA, Fenske TG, Schwabacher AW, Silvaggi NR. Correction to " MppP is a PLP-Dependent Oxidase, Not an Oxygenase". Biochemistry. PMID 31790219 DOI: 10.1021/Acs.Biochem.9B00994  1
2019 Mydy L, Hoppe RW, Hagemann TM, Schwabacher AW, Silvaggi N. Mechanistic Studies of the Streptomyces bingchenggensis Aldolase-Dehydratase: Implications for Substrate and Reaction Specificity in the Acetoacetate Decarboxylase-Like Superfamily. Biochemistry. PMID 31524380 DOI: 10.1021/Acs.Biochem.9B00652  1
2019 Roman JV, Melkonian TR, Silvaggi N, Moran GR. Transient State Analysis of Human Isocitrate Dehydrogenase I: Accounting for the Interconversion of Active and Non-Active Conformational States. Biochemistry. PMID 31478653 DOI: 10.1021/Acs.Biochem.9B00518  1
2018 Glanville DG, Han L, Maule AF, Woodacre A, Thanki D, Abdullah IT, Morrissey JA, Clarke TB, Yesilkaya H, Silvaggi NR, Ulijasz AT. RitR is an archetype for a novel family of redox sensors in the streptococci that has evolved from two-component response regulators and is required for pneumococcal colonization. Plos Pathogens. 14: e1007052. PMID 29750817 DOI: 10.1371/Journal.Ppat.1007052  1
2018 Han L, Vuksanovic N, Oehm SA, Fenske TG, Schwabacher AW, Silvaggi N. Streptomyces wadayamensis MppP is a PLP-dependent oxidase, not an oxygenase. Biochemistry. PMID 29473729 DOI: 10.1021/Acs.Biochem.8B00130  1
2017 Mydy LS, Mashhadi Z, Knight TW, Fenske T, Hagemann T, Hoppe RW, Han L, Miller TR, Schwabacher AW, Silvaggi NR. Swit_4259, an acetoacetate decarboxylase-like enzyme from Sphingomonas wittichii RW1. Acta Crystallographica. Section F, Structural Biology Communications. 73: 672-681. PMID 29199988 DOI: 10.1107/S2053230X17015862  1
2017 Jacobson AR, Adler M, Silvaggi NR, Allen KN, Smith GM, Fredenburg RA, Stein RL, Park JB, Feng X, Shoemaker CB, Deshpande SS, Goodnough MC, Malizio CJ, Johnson EA, Pellett S, et al. Small molecule metalloprotease inhibitor with in vitro, ex vivo and in vivo efficacy against botulinum neurotoxin serotype A. Toxicon : Official Journal of the International Society On Toxinology. PMID 28698055 DOI: 10.1016/J.Toxicon.2017.06.016  1
2016 Beaupre BA, Roman JV, Hoag MR, Meneely KM, Silvaggi NR, Lamb AL, Moran GR. Ligand binding phenomena that pertain to the metabolic function of renalase. Archives of Biochemistry and Biophysics. PMID 27769837 DOI: 10.1016/J.Abb.2016.10.011  1
2016 Zhu Y, Han L, Hefferon KL, Silvaggi NR, Wilson DB, McBride MJ. Periplasmic Cytophaga hutchinsonii endoglucanases are required for use of crystalline cellulose as sole carbon and energy source. Applied and Environmental Microbiology. PMID 27260354 DOI: 10.1128/Aem.01298-16  1
2016 Teske KA, Bogart JW, Sanchez LM, Yu OB, Preston JV, Cook JM, Silvaggi NR, Bikle DD, Arnold LA. Synthesis and evaluation of vitamin D receptor-mediated activities of cholesterol and vitamin D metabolites. European Journal of Medicinal Chemistry. 109: 238-246. PMID 26774929 DOI: 10.1016/J.Ejmech.2016.01.002  1
2015 Han L, Schwabacher AW, Moran GR, Silvaggi NR. Streptomyces wadayamensis MppP is a PLP-Dependent L-Arginine α-deaminase, γ-Hydroxylase in the Enduracididine Biosynthetic Pathway. Biochemistry. PMID 26551990 DOI: 10.1021/Acs.Biochem.5B01016  1
2015 Guthrie ML, Sidhu PS, Hill EK, Horan TC, Nandhikonda P, Teske KA, Yuan NY, Sidorko M, Rodali R, Cook JM, Han L, Silvaggi NR, Bikle DD, Moore RG, Singh RK, et al. Antitumor Activity of 3-Indolylmethanamines 31B and PS121912. Anticancer Research. 35: 6001-7. PMID 26504023  1
2015 Mueller LS, Hoppe RW, Ochsenwald JM, Berndt RT, Severin GB, Schwabacher AW, Silvaggi NR. Sbi00515, a Protein of Unknown Function from Streptomyces bingchenggensis, Highlights the Functional Versatility of the Acetoacetate Decarboxylase Scaffold. Biochemistry. 54: 3978-88. PMID 26039798 DOI: 10.1021/Acs.Biochem.5B00483  1
2015 Hoag MR, Roman J, Beaupre BA, Silvaggi NR, Moran GR. Bacterial Renalase: Structure and Kinetics of an Enzyme with 2- and 6-Dihydro-β-NAD(P) Oxidase Activity from Pseudomonas phaseolicola. Biochemistry. 54: 3791-802. PMID 26016690 DOI: 10.1021/Acs.Biochem.5B00451  1
2015 Maule AF, Wright DP, Weiner JJ, Han L, Peterson FC, Volkman BF, Silvaggi NR, Ulijasz AT. The aspartate-less receiver (ALR) domains: distribution, structure and function. Plos Pathogens. 11: e1004795. PMID 25875291 DOI: 10.1371/Journal.Ppat.1004795  1
2015 Lamb AL, Kappock TJ, Silvaggi NR. You are lost without a map: Navigating the sea of protein structures. Biochimica Et Biophysica Acta. 1854: 258-68. PMID 25554228 DOI: 10.1016/J.Bbapap.2014.12.021  1
2015 Mueller LS, Hoppe RW, Ochsenwald JM, Berndt RT, Severin GB, Schwabacher AW, Silvaggi NR. Sbi00515, a Protein of Unknown Function from Streptomyces bingchenggensis, Highlights the Functional Versatility of the Acetoacetate Decarboxylase Scaffold Biochemistry. 54: 3978-3988. DOI: 10.1021/acs.biochem.5b00483  1
2015 Lamb AL, Kappock TJ, Silvaggi NR. You are lost without a map: Navigating the sea of protein structures Biochimica Et Biophysica Acta - Proteins and Proteomics. 1854: 258-268. DOI: 10.1016/j.bbapap.2014.12.021  1
2014 Teske K, Nandhikonda P, Bogart JW, Feleke B, Sidhu P, Yuan N, Preston J, Goy R, Han L, Silvaggi NR, Singh RK, Bikle DD, Cook JM, Arnold LA. IDENTIFICATION OF VDR ANTAGONISTS AMONG NUCLEAR RECEPTOR LIGANDS USING VIRTUAL SCREENING. Nuclear Receptor Research. 1. PMID 25419525 DOI: 10.11131/2014/101076  1
2014 Sidhu PS, Teske K, Feleke B, Yuan NY, Guthrie ML, Fernstrum GB, Vyas ND, Han L, Preston J, Bogart JW, Silvaggi NR, Cook JM, Singh RK, Bikle DD, Arnold LA. Anticancer activity of VDR-coregulator inhibitor PS121912. Cancer Chemotherapy and Pharmacology. 74: 787-98. PMID 25107568 DOI: 10.1007/S00280-014-2549-Y  1
2013 Burroughs AM, Hoppe RW, Goebel NC, Sayyed BH, Voegtline TJ, Schwabacher AW, Zabriskie TM, Silvaggi NR. Structural and functional characterization of MppR, an enduracididine biosynthetic enzyme from streptomyces hygroscopicus: Functional diversity in the acetoacetate decarboxylase-like superfamily Biochemistry. 52: 4492-4506. PMID 23758195 DOI: 10.1021/Bi400397K  1
2013 Å ilhár P, Silvaggi NR, Pellett S, ÄŒapková K, Johnson EA, Allen KN, Janda KD. Evaluation of adamantane hydroxamates as botulinum neurotoxin inhibitors: synthesis, crystallography, modeling, kinetic and cellular based studies. Bioorganic & Medicinal Chemistry. 21: 1344-8. PMID 23340139 DOI: 10.1016/J.Bmc.2012.12.001  1
2011 Toteva MM, Silvaggi NR, Allen KN, Richard JP. Binding energy and catalysis by d -xylose isomerase: Kinetic, product, and X-ray Crystallographic analysis of enzyme-catalyzed isomerization of (R)-glyceraldehyde Biochemistry. 50: 10170-10181. PMID 21995300 DOI: 10.1021/Bi201378C  1
2010 Stowe GN, Silhár P, Hixon MS, Silvaggi NR, Allen KN, Moe ST, Jacobson AR, Barbieri JT, Janda KD. Chirality holds the key for potent inhibition of the botulinum neurotoxin serotype a protease. Organic Letters. 12: 756-9. PMID 20092262 DOI: 10.1021/Ol902820Z  1
2008 Silvaggi NR, Wilson D, Tzipori S, Allen KN. Catalytic features of the botulinum neurotoxin A light chain revealed by high resolution structure of an inhibitory peptide complex Biochemistry. 47: 5736-5745. PMID 18457419 DOI: 10.1021/Bi8001067  1
2007 Silvaggi NR, Boldt GE, Hixon MS, Kennedy JP, Tzipori S, Janda KD, Allen KN. Structures of Clostridium botulinum Neurotoxin Serotype A Light Chain complexed with small-molecule inhibitors highlight active-site flexibility. Chemistry & Biology. 14: 533-42. PMID 17524984 DOI: 10.1016/J.Chembiol.2007.03.014  1
2007 Silvaggi NR, Martin LJ, Schwalbe H, Imperiali B, Allen KN. Double-lanthanide-binding tags for macromolecular crystallographic structure determination. Journal of the American Chemical Society. 129: 7114-20. PMID 17497863 DOI: 10.1021/Ja070481N  1
2007 Martin LJ, Hähnke MJ, Nitz M, Wöhnert J, Silvaggi NR, Allen KN, Schwalbe H, Imperiali B. Double-lanthanide-binding tags: design, photophysical properties, and NMR applications. Journal of the American Chemical Society. 129: 7106-13. PMID 17497862 DOI: 10.1021/Ja070480V  1
2006 Silvaggi NR, Zhang C, Lu Z, Dai J, Dunaway-Mariano D, Allen KN. The X-ray crystal structures of human α-phosphomannomutase 1 reveal the structural basis of congenital disorder of glycosylation type 1a Journal of Biological Chemistry. 281: 14918-14926. PMID 16540464 DOI: 10.1074/Jbc.M601505200  1
2005 Llinás A, Ahmed N, Cordaro M, Laws AP, Frère JM, Delmarcelle M, Silvaggi NR, Kelly JA, Page MI. Inactivation of bacterial DD-peptidase by beta-sultams. Biochemistry. 44: 7738-46. PMID 15909988 DOI: 10.1021/Bi050110O  1
2005 Silvaggi NR, Josephine HR, Kuzin AP, Nagarajan R, Pratt RF, Kelly JA. Crystal structures of complexes between the R61 DD-peptidase and peptidoglycan-mimetic beta-lactams: a non-covalent complex with a "perfect penicillin". Journal of Molecular Biology. 345: 521-33. PMID 15581896 DOI: 10.1016/J.Jmb.2004.10.076  1
2004 Silvaggi NR, Kaur K, Adediran SA, Pratt RF, Kelly JA. Toward better antibiotics: crystallographic studies of a novel class of DD-peptidase/beta-lactamase inhibitors. Biochemistry. 43: 7046-53. PMID 15170342 DOI: 10.1021/Bi049612C  1
2003 Silvaggi NR, Anderson JW, Brinsmade SR, Pratt RF, Kelly JA. The crystal structure of phosphonate-inhibited D-Ala-D-Ala peptidase reveals an analogue of a tetrahedral transition state. Biochemistry. 42: 1199-208. PMID 12564922 DOI: 10.1021/Bi0268955  1
2002 McDonough MA, Anderson JW, Silvaggi NR, Pratt RF, Knox JR, Kelly JA. Structures of two kinetic intermediates reveal species specificity of penicillin-binding proteins. Journal of Molecular Biology. 322: 111-22. PMID 12215418 DOI: 10.1016/S0022-2836(02)00742-8  1
2002 Kelly JA, Brinsmade SR, Silvaggi NR. Trapping reaction intermediates: a transition state on the R61 DD-peptidase catalytic pathway Acta Crystallographica Section a Foundations of Crystallography. 58: c103-c103. DOI: 10.1107/S0108767302089146  1
2001 Lee W, McDonough MA, Kotra LP, Li ZH, Silvaggi NR, Takeda Y, Kelly JA, Mobashery S. A 1.2-Å snapshot of the final step of bacterial cell wall biosynthesis Proceedings of the National Academy of Sciences of the United States of America. 98: 1427-1431. PMID 11171967 DOI: 10.1073/Pnas.98.4.1427  1
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