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Goldberga I, Hung I, Sarou-Kanian V, Gervais C, Gan Z, Novák-Špačková J, Métro TX, Leroy C, Berthomieu D, van der Lee A, Bonhomme C, Laurencin D. High-Resolution 17O Solid-State NMR as a Unique Probe for Investigating Oxalate Binding Modes in Materials: The Case Study of Calcium Oxalate Biominerals. Inorg Chem 2024; 63:10179-10193. [PMID: 38729620 DOI: 10.1021/acs.inorgchem.4c00300] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/12/2024]
Abstract
Oxalate ligands are found in many classes of materials, including energy storage materials and biominerals. Determining their local environments at the atomic scale is thus paramount to establishing the structure and properties of numerous phases. Here, we show that high-resolution 17O solid-state NMR is a valuable asset for investigating the structure of crystalline oxalate systems. First, an efficient 17O-enrichment procedure of oxalate ligands is demonstrated using mechanochemistry. Then, 17O-enriched oxalates were used for the synthesis of the biologically relevant calcium oxalate monohydrate (COM) phase, enabling the analysis of its structure and heat-induced phase transitions by high-resolution 17O NMR. Studies of the low-temperature COM form (LT-COM), using magnetic fields from 9.4 to 35.2 T, as well as 13C-17O MQ/D-RINEPT and 17O{1H} MQ/REDOR experiments, enabled the 8 inequivalent oxygen sites of the oxalates to be resolved, and tentatively assigned. The structural changes upon heat treatment of COM were also followed by high-resolution 17O NMR, providing new insight into the structures of the high-temperature form (HT-COM) and anhydrous calcium oxalate α-phase (α-COA), including the presence of structural disorder in the latter case. Overall, this work highlights the ease associated with 17O-enrichment of oxalate oxygens, and how it enables high-resolution solid-state NMR, for "NMR crystallography" investigations.
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Affiliation(s)
- Ieva Goldberga
- ICGM, Univ Montpellier, CNRS, ENSCM, 34293 Montpellier, France
| | - Ivan Hung
- National High Magnetic Laboratory (NHMFL), Tallahassee, Florida 32310, United States
| | | | | | - Zhehong Gan
- National High Magnetic Laboratory (NHMFL), Tallahassee, Florida 32310, United States
| | | | | | - César Leroy
- ICGM, Univ Montpellier, CNRS, ENSCM, 34293 Montpellier, France
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2
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Wu G, Dai Y, Hung I, Gan Z, Terskikh V. 1H/ 17O Chemical Shift Waves in Carboxyl-Bridged Hydrogen Bond Networks in Organic Solids. J Phys Chem A 2024; 128:4288-4296. [PMID: 38748612 DOI: 10.1021/acs.jpca.4c01866] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/31/2024]
Abstract
We report solid-state 1H and 17O NMR results for four 17O-labeled organic compounds each containing an extensive carboxyl-bridged hydrogen bond (CBHB) network in the crystal lattice: tetrabutylammonium hydrogen di-[17O2]salicylate (1), [17O4]quinolinic acid (2), [17O4]dinicotinic acid (3), and [17O2]Gly/[17O2]Gly·HCl cocrystal (4). The 1H isotropic chemical shifts found for protons involved in different CBHB networks are between 8.2 and 20.5 ppm, which reflect very different hydrogen-bonding environments. Similarly, the 17O isotropic chemical shifts found for the carboxylate oxygen atoms in CBHB networks, spanning a large range between 166 and 341 ppm, are also remarkably sensitive to the hydrogen-bonding environments. We introduced a simple graphical representation in which 1H and 17O chemical shifts are displayed along the H and O atomic chains that form the CBHB network. In such a depiction, because wavy patterns are often observed, we refer to these wavy patterns as 1H/17O chemical shift waves. Typical patterns of 1H/17O chemical shift waves in CBHB networks are discussed. The reported 1H and 17O NMR parameters for the CBHB network models examined in this study can serve as benchmarks to aid in spectral interpretation for CBHB networks in proteins.
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Affiliation(s)
- Gang Wu
- Department of Chemistry, Queen's University, 90 Bader Lane, Kingston Ontario K7L 3N6, Canada
| | - Yizhe Dai
- Department of Chemistry, Queen's University, 90 Bader Lane, Kingston Ontario K7L 3N6, Canada
| | - Ivan Hung
- National High Magnetic Field Laboratory, 1800 East Paul Dirac Drive, Tallahassee, Florida 32310, United States
| | - Zhehong Gan
- National High Magnetic Field Laboratory, 1800 East Paul Dirac Drive, Tallahassee, Florida 32310, United States
| | - Victor Terskikh
- Metrology, National Research Council Canada, Ottawa K1A 0R6, Canada
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3
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Fu R, Ramamoorthy A. 17O Solid-State NMR Spectroscopy of Lipid Membranes. J Phys Chem B 2024; 128:3527-3537. [PMID: 38568422 DOI: 10.1021/acs.jpcb.4c01016] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/19/2024]
Abstract
Despite the limitations posed by poor sensitivity, studies have reported the unique advantages of 17O based NMR spectroscopy to study systems existing in liquid, solid, or semisolid states. 17O NMR studies have exploited the remarkable sensitivity of quadrupole coupling and chemical shift anisotropy tensors to the local environment in the characterization of a variety of intra- and intermolecular interactions and motion. Recent studies have considerably expanded the use of 17O NMR to study dynamic intermolecular interactions associated with some of the challenging biological systems under magic angle spinning (MAS) and aligned conditions. The very fast relaxing nature of 17O has been well utilized in cellular and in vivo MRS (magnetic resonance spectroscopy) and MRI (magnetic resonance imaging) applications. The main focus of this Review is to highlight the new developments in the biological solids with a detailed discussion for a few selected examples including membrane proteins and nanodiscs. In addition to the unique benefits and limitations, the remaining challenges to overcome, and the impacts of higher magnetic fields and sensitivity enhancement techniques are discussed.
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Affiliation(s)
- Riqiang Fu
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States
| | - Ayyalusamy Ramamoorthy
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States
- Department of Chemical and Biomedical Engineering, Institute of Molecular Biophysics, Florida State University, Tallahassee, Florida 32310, United States
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4
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Hoffmann L, Beerwerth J, Moch K, Böhmer R. Phenol, the simplest aromatic monohydroxy alcohol, displays a faint Debye-like process when mixed with a nonassociating liquid. Phys Chem Chem Phys 2023; 25:24042-24059. [PMID: 37654228 DOI: 10.1039/d3cp02774k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/02/2023]
Abstract
Solvated in propylene carbonate, viscous phenol is studied using dielectric spectroscopy and shear rheology. In addition, several oxygen-17 and deuteron nuclear magnetic resonance (NMR) techniques are applied to specifically isotope labeled equimolar mixtures. Quantum chemical calculations are used to check the electrical field gradient at phenol's oxygen site. The chosen combination of NMR methods facilitates the selective examination of potentially hydrogen-bond related contributions as well as those dominated by the structural relaxation. Taken together the present results for phenol in equimolar mixtures with the van der Waals liquid propylene carbonate provide evidence for the existence of a very weak Debye-like process that originates from ringlike supramolecular associates.
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Affiliation(s)
- Lars Hoffmann
- Fakultät Physik, Technische Universität Dortmund, 44221 Dortmund, Germany
| | - Joachim Beerwerth
- Fakultät Physik, Technische Universität Dortmund, 44221 Dortmund, Germany
| | - Kevin Moch
- Fakultät Physik, Technische Universität Dortmund, 44221 Dortmund, Germany
| | - Roland Böhmer
- Fakultät Physik, Technische Universität Dortmund, 44221 Dortmund, Germany
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5
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Hoffmann L, Beerwerth J, Adjei-Körner M, Fuentes-Landete V, Tonauer CM, Loerting T, Böhmer R. Oxygen NMR of high-density and low-density amorphous ice. J Chem Phys 2022; 156:084503. [DOI: 10.1063/5.0080333] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Using oxygen-17 as a nuclear probe, spin relaxometry was applied to study the high-density and low-density states of amorphous ice, covering temperatures below and somewhat above their glass transitions. These findings are put in perspective with results from deuteron nuclear magnetic resonance and with calculations based on dielectrically detected correlation times. This comparison reveals the presence of a wide distribution of correlation times. Furthermore, oxygen-17 central-transition echo spectra were recorded for wide ranges of temperature and pulse spacing. The spectra cannot be described by a single set of quadrupolar parameters, suggesting a distribution of H–O–H opening angles that is broader for high-density than for low-density amorphous ice. Simulations of the pulse separation dependent spin-echo spectra for various scenarios demonstrate that a small-step frequency diffusion process, assigned to the presence of homonuclear oxygen–oxygen interactions, determines the shape evolution of the pulse-separation-dependent spectra.
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Affiliation(s)
- Lars Hoffmann
- Fakultät Physik, Technische Universität Dortmund, 44221 Dortmund, Germany
| | - Joachim Beerwerth
- Fakultät Physik, Technische Universität Dortmund, 44221 Dortmund, Germany
| | | | - Violeta Fuentes-Landete
- Institute of Physical Chemistry, University of Innsbruck, Innrain 52c, A-6020 Innsbruck, Austria
| | - Christina M. Tonauer
- Institute of Physical Chemistry, University of Innsbruck, Innrain 52c, A-6020 Innsbruck, Austria
| | - Thomas Loerting
- Institute of Physical Chemistry, University of Innsbruck, Innrain 52c, A-6020 Innsbruck, Austria
| | - Roland Böhmer
- Fakultät Physik, Technische Universität Dortmund, 44221 Dortmund, Germany
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6
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Holmes JB, Liu V, Caulkins BG, Hilario E, Ghosh RK, Drago VN, Young RP, Romero JA, Gill AD, Bogie PM, Paulino J, Wang X, Riviere G, Bosken YK, Struppe J, Hassan A, Guidoulianov J, Perrone B, Mentink-Vigier F, Chang CEA, Long JR, Hooley RJ, Mueser TC, Dunn MF, Mueller LJ. Imaging active site chemistry and protonation states: NMR crystallography of the tryptophan synthase α-aminoacrylate intermediate. Proc Natl Acad Sci U S A 2022; 119:e2109235119. [PMID: 34996869 PMCID: PMC8764694 DOI: 10.1073/pnas.2109235119] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 11/15/2021] [Indexed: 02/07/2023] Open
Abstract
NMR-assisted crystallography-the integrated application of solid-state NMR, X-ray crystallography, and first-principles computational chemistry-holds significant promise for mechanistic enzymology: by providing atomic-resolution characterization of stable intermediates in enzyme active sites, including hydrogen atom locations and tautomeric equilibria, NMR crystallography offers insight into both structure and chemical dynamics. Here, this integrated approach is used to characterize the tryptophan synthase α-aminoacrylate intermediate, a defining species for pyridoxal-5'-phosphate-dependent enzymes that catalyze β-elimination and replacement reactions. For this intermediate, NMR-assisted crystallography is able to identify the protonation states of the ionizable sites on the cofactor, substrate, and catalytic side chains as well as the location and orientation of crystallographic waters within the active site. Most notable is the water molecule immediately adjacent to the substrate β-carbon, which serves as a hydrogen bond donor to the ε-amino group of the acid-base catalytic residue βLys87. From this analysis, a detailed three-dimensional picture of structure and reactivity emerges, highlighting the fate of the L-serine hydroxyl leaving group and the reaction pathway back to the preceding transition state. Reaction of the α-aminoacrylate intermediate with benzimidazole, an isostere of the natural substrate indole, shows benzimidazole bound in the active site and poised for, but unable to initiate, the subsequent bond formation step. When modeled into the benzimidazole position, indole is positioned with C3 in contact with the α-aminoacrylate Cβ and aligned for nucleophilic attack. Here, the chemically detailed, three-dimensional structure from NMR-assisted crystallography is key to understanding why benzimidazole does not react, while indole does.
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Affiliation(s)
- Jacob B Holmes
- Department of Chemistry, University of California, Riverside, CA 92521
| | - Viktoriia Liu
- Department of Chemistry, University of California, Riverside, CA 92521
| | - Bethany G Caulkins
- Department of Chemistry, University of California, Riverside, CA 92521
- W.M. Keck Science Department, Claremont McKenna, Pitzer, and Scripps Colleges, Claremont, CA 91711
| | - Eduardo Hilario
- Department of Chemistry, University of California, Riverside, CA 92521
| | - Rittik K Ghosh
- Department of Biochemistry, University of California, Riverside, CA 92521
| | - Victoria N Drago
- Department of Chemistry and Biochemistry, University of Toledo, Toledo, OH 43606
| | - Robert P Young
- Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA 99354
| | - Jennifer A Romero
- Department of Chemistry, University of California, Riverside, CA 92521
| | - Adam D Gill
- Department of Biochemistry, University of California, Riverside, CA 92521
| | - Paul M Bogie
- Department of Chemistry, University of California, Riverside, CA 92521
| | - Joana Paulino
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, FL 32310
| | - Xiaoling Wang
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, FL 32310
| | - Gwladys Riviere
- Department of Biochemistry and Molecular Biology, McKnight Brain Institute, National High Magnetic Field Laboratory, University of Florida, Gainesville, FL 32610
| | - Yuliana K Bosken
- Department of Biochemistry, University of California, Riverside, CA 92521
| | | | - Alia Hassan
- Bruker Switzerland AG 8117 Fällanden, Switzerland
| | | | | | | | - Chia-En A Chang
- Department of Chemistry, University of California, Riverside, CA 92521
| | - Joanna R Long
- Department of Biochemistry and Molecular Biology, McKnight Brain Institute, National High Magnetic Field Laboratory, University of Florida, Gainesville, FL 32610
| | - Richard J Hooley
- Department of Chemistry, University of California, Riverside, CA 92521
- Department of Biochemistry, University of California, Riverside, CA 92521
| | - Timothy C Mueser
- Department of Chemistry and Biochemistry, University of Toledo, Toledo, OH 43606
| | - Michael F Dunn
- Department of Biochemistry, University of California, Riverside, CA 92521;
| | - Leonard J Mueller
- Department of Chemistry, University of California, Riverside, CA 92521;
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7
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Shen J, Terskikh V, Struppe J, Hassan A, Monette M, Hung I, Gan Z, Brinkmann A, Wu G. Solid-state 17O NMR study of α-d-glucose: exploring new frontiers in isotopic labeling, sensitivity enhancement, and NMR crystallography. Chem Sci 2022; 13:2591-2603. [PMID: 35340864 PMCID: PMC8890099 DOI: 10.1039/d1sc06060k] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2021] [Accepted: 12/31/2021] [Indexed: 01/03/2023] Open
Abstract
We report the first “total synthesis” of 17O-labeled d-glucose and its solid-state 17O NMR characterization with unprecedented sensitivity and resolution.
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Affiliation(s)
- Jiahui Shen
- Department of Chemistry, Queen's University, 90 Bader Lane, Kingston, Ontario K7L 3N6, Canada
| | - Victor Terskikh
- Metrology, National Research Council Canada, Ottawa, Ontario K1A 0R6, Canada
| | - Jochem Struppe
- Bruker Biospin Corporation, 15 Fortune Drive, Billerica, MA 01821, USA
| | - Alia Hassan
- Bruker Switzerland AG, Fällanden, Switzerland
| | - Martine Monette
- Bruker Biospin Ltd., 2800 High Point Drive, Suite 206, Milton, Ontario L9T 6P4, Canada
| | - Ivan Hung
- National High Magnetic Field Laboratory, 1800 East Paul Dirac Drive, Tallahassee, Florida 32310, USA
| | - Zhehong Gan
- National High Magnetic Field Laboratory, 1800 East Paul Dirac Drive, Tallahassee, Florida 32310, USA
| | - Andreas Brinkmann
- Metrology, National Research Council Canada, Ottawa, Ontario K1A 0R6, Canada
| | - Gang Wu
- Department of Chemistry, Queen's University, 90 Bader Lane, Kingston, Ontario K7L 3N6, Canada
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8
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Huynh W, Taylor JW, Harman WH, Conley MP. Solid-state 11B NMR studies of coinage metal complexes containing a phosphine substituted diboraanthracene ligand. Dalton Trans 2021; 50:14855-14863. [PMID: 34604875 DOI: 10.1039/d1dt02981a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Transition metal interactions with Lewis acids (M → Z linkages) are fundamentally interesting and practically important. The most common Z-type ligands contain boron, which contains an NMR active 11B nucleus. We measured solid-state 11B{1H} NMR spectra of copper, silver, and gold complexes containing a phosphine substituted 9,10-diboraanthracene ligand (B2P2) that contain planar boron centers and weak M → BR3 linkages ([(B2P2)M][BArF4] (M = Cu (1), Ag (2), Au (3)) characterized by large quadrupolar coupling (CQ) values (4.4-4.7 MHz) and large span (Ω) values (93-139 ppm). However, the solid-state 11B{1H} NMR spectrum of K[Au(B2P2)]- (4), which contains tetrahedral borons, is narrow and characterized by small CQ and Ω values. DFT analysis of 1-4 shows that CQ and Ω are expected to be large for planar boron environments and small for tetrahedral boron, and that the presence of a M → BR3 linkage relates to the reduction in CQ and 11B NMR shielding properties. Thus solid-state 11B NMR spectroscopy contains valuable information about M → BR3 linkages in complexes containing the B2P2 ligand.
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Affiliation(s)
- Winn Huynh
- Department of Chemistry, University of California, Riverside, California 92521, USA.
| | - Jordan W Taylor
- Department of Chemistry, University of California, Riverside, California 92521, USA.
| | - W Hill Harman
- Department of Chemistry, University of California, Riverside, California 92521, USA.
| | - Matthew P Conley
- Department of Chemistry, University of California, Riverside, California 92521, USA.
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9
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Muniyappan S, Lin Y, Lee YH, Kim JH. 17O NMR Spectroscopy: A Novel Probe for Characterizing Protein Structure and Folding. BIOLOGY 2021; 10:biology10060453. [PMID: 34064021 PMCID: PMC8223985 DOI: 10.3390/biology10060453] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/07/2021] [Revised: 05/14/2021] [Accepted: 05/18/2021] [Indexed: 11/16/2022]
Abstract
Oxygen is a key atom that maintains biomolecular structures, regulates various physiological processes, and mediates various biomolecular interactions. Oxygen-17 (17O), therefore, has been proposed as a useful probe that can provide detailed information about various physicochemical features of proteins. This is attributed to the facts that (1) 17O is an active isotope for nuclear magnetic resonance (NMR) spectroscopic approaches; (2) NMR spectroscopy is one of the most suitable tools for characterizing the structural and dynamical features of biomolecules under native-like conditions; and (3) oxygen atoms are frequently involved in essential hydrogen bonds for the structural and functional integrity of proteins or related biomolecules. Although 17O NMR spectroscopic investigations of biomolecules have been considerably hampered due to low natural abundance and the quadruple characteristics of the 17O nucleus, recent theoretical and technical developments have revolutionized this methodology to be optimally poised as a unique and widely applicable tool for determining protein structure and dynamics. In this review, we recapitulate recent developments in 17O NMR spectroscopy to characterize protein structure and folding. In addition, we discuss the highly promising advantages of this methodology over other techniques and explain why further technical and experimental advancements are highly desired.
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Affiliation(s)
- Srinivasan Muniyappan
- Department of New Biology, Daegu Gyeongbuk Institute of Science and Technology (DGIST), Daegu 42988, Korea;
| | - Yuxi Lin
- Research Center for Bioconvergence Analysis, Korea Basic Science Institute, Cheongju 28119, Korea;
| | - Young-Ho Lee
- Research Center for Bioconvergence Analysis, Korea Basic Science Institute, Cheongju 28119, Korea;
- Department of Bio-Analytical Science, University of Science and Technology, Daejeon 34113, Korea
- Graduate School of Analytical Science and Technology, Chungnam National University, Daejeon 34134, Korea
- Research Headquarters, Korea Brain Research Institute, Daegu 41068, Korea
- Correspondence: (Y.-H.L.); (J.H.K.)
| | - Jin Hae Kim
- Department of New Biology, Daegu Gyeongbuk Institute of Science and Technology (DGIST), Daegu 42988, Korea;
- Correspondence: (Y.-H.L.); (J.H.K.)
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10
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Lin B, Hung I, Gan Z, Chien PH, Spencer HL, Smith SP, Wu G. 17 O NMR Studies of Yeast Ubiquitin in Aqueous Solution and in the Solid State. Chembiochem 2020; 22:826-829. [PMID: 33058374 DOI: 10.1002/cbic.202000659] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2020] [Revised: 10/14/2020] [Indexed: 12/18/2022]
Abstract
We report a general method for amino acid-type specific 17 O-labeling of recombinant proteins in Escherichia coli. In particular, we have prepared several [1-13 C,17 O]-labeled yeast ubiquitin (Ub) samples including Ub-[1-13 C,17 O]Gly, Ub-[1-13 C,17 O]Tyr, and Ub-[1-13 C,17 O]Phe using the auxotrophic E. coli strain DL39 GlyA λDE3 (aspC- tyrB- ilvE- glyA- λDE3). We have also produced Ub-[η-17 O]Tyr, in which the phenolic group of Tyr59 is 17 O-labeled. We show for the first time that 17 O NMR signals from protein terminal residues and side chains can be readily detected in aqueous solution. We also reported solid-state 17 O NMR spectra for Ub-[1-13 C,17 O]Tyr and Ub-[1-13 C,17 O]Phe obtained at an ultrahigh magnetic field, 35.2 T (1.5 GHz for 1 H). This work represents a significant advance in the field of 17 O NMR studies of proteins.
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Affiliation(s)
- Binyang Lin
- Department of Chemistry, Queen's University, Kingston, ON K7L 3N6, Canada
| | - Ivan Hung
- Center for Interdisciplinary Magnetic Resonance, National High Magnetic Field Laboratory, Tallahassee, FL 32310, USA
| | - Zhehong Gan
- Center for Interdisciplinary Magnetic Resonance, National High Magnetic Field Laboratory, Tallahassee, FL 32310, USA
| | - Po-Hsiu Chien
- Center for Interdisciplinary Magnetic Resonance, National High Magnetic Field Laboratory, Tallahassee, FL 32310, USA
| | - Holly L Spencer
- Department of Biomedical and Molecular Sciences, Queen's University, Kingston, ON K7L 3N6, Canada
| | - Steven P Smith
- Department of Biomedical and Molecular Sciences, Queen's University, Kingston, ON K7L 3N6, Canada
| | - Gang Wu
- Department of Chemistry, Queen's University, Kingston, ON K7L 3N6, Canada
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11
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Wu G. 17O NMR studies of organic and biological molecules in aqueous solution and in the solid state. PROGRESS IN NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY 2019; 114-115:135-191. [PMID: 31779879 DOI: 10.1016/j.pnmrs.2019.06.002] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2019] [Revised: 06/11/2019] [Accepted: 06/11/2019] [Indexed: 06/10/2023]
Abstract
This review describes the latest developments in the field of 17O NMR spectroscopy of organic and biological molecules both in aqueous solution and in the solid state. In the first part of the review, a general theoretical description of the nuclear quadrupole relaxation process in isotropic liquids is presented at a mathematical level suitable for non-specialists. In addition to the first-order quadrupole interaction, the theory also includes additional relaxation mechanisms such as the second-order quadrupole interaction and its cross correlation with shielding anisotropy. This complete theoretical treatment allows one to assess the transverse relaxation rate (thus the line width) of NMR signals from half-integer quadrupolar nuclei in solution over the entire range of motion. On the basis of this theoretical framework, we discuss general features of quadrupole-central-transition (QCT) NMR, which is a particularly powerful method of studying biomolecules in the slow motion regime. Then we review recent advances in 17O QCT NMR studies of biological macromolecules in aqueous solution. The second part of the review is concerned with solid-state 17O NMR studies of organic and biological molecules. As a sequel to the previous review on the same subject [G. Wu, Prog. Nucl. Magn. Reson. Spectrosc. 52 (2008) 118-169], the current review provides a complete coverage of the literature published since 2008 in this area.
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Affiliation(s)
- Gang Wu
- Department of Chemistry, Queen's University, 90 Bader Lane, Kingston, Ontario K7L 3N6, Canada.
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12
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Shen J, Terskikh V, Wu G. A Quadrupole-Central-Transition 59
Co NMR Study of Cobalamins in Solution. Chemphyschem 2018; 20:268-275. [DOI: 10.1002/cphc.201800683] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2018] [Indexed: 11/09/2022]
Affiliation(s)
- Jiahui Shen
- Department of Chemistry; Queen's University, 90 Bader Lane, Kingston; Ontario Canada K7L 3N6
| | - Victor Terskikh
- Department of Chemistry; Queen's University, 90 Bader Lane, Kingston; Ontario Canada K7L 3N6
- Department of Chemistry; University of Ottawa, Ottawa; Ontario Canada K1N 6N5
| | - Gang Wu
- Department of Chemistry; Queen's University, 90 Bader Lane, Kingston; Ontario Canada K7L 3N6
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13
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Shen J, Terskikh V, Wang X, Hung I, Gan Z, Wu G. A Quadrupole-Central-Transition 17O NMR Study of Nicotinamide: Experimental Evidence of Cross-Correlation between Second-Order Quadrupolar Interaction and Magnetic Shielding Anisotropy. J Phys Chem B 2018; 122:4813-4820. [PMID: 29683675 DOI: 10.1021/acs.jpcb.8b02417] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We have examined the 17O quadrupole-central-transition (QCT) NMR signal from [17O]nicotinamide (vitamin B3) dissolved in glycerol. Measurements were performed at five magnetic fields ranging from 9.4 to 35.2 T between 243 and 363 K. We found that, in the ultraslow motion regime, cross-correlation between the second-order quadrupole interaction and magnetic shielding anisotropy is an important contributor to the transverse relaxation process for the 17O QCT signal of [17O]nicotinamide. While such a cross-correlation effect has generally been predicted by relaxation theory, we report here the first experimental evidence for this phenomenon in solution-state NMR for quadrupolar nuclei. We have discussed the various factors that determine the ultimate resolution limit in QCT NMR spectroscopy. The present study also highlights the advantages of performing QCT NMR experiments at very high magnetic fields (e.g., 35.2 T).
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Affiliation(s)
- Jiahui Shen
- Department of Chemistry , Queen's University , 90 Bader Lane , Kingston , Ontario , Canada K7L 3N6
| | - Victor Terskikh
- Department of Chemistry , Queen's University , 90 Bader Lane , Kingston , Ontario , Canada K7L 3N6.,Department of Chemistry , University of Ottawa , Ottawa , Ontario , Canada K1N 6N5
| | - Xiaoling Wang
- National High Magnetic Field Laboratory , 1800 East Paul Dirac Drive , Tallahassee , Florida 32310 , United States
| | - Ivan Hung
- National High Magnetic Field Laboratory , 1800 East Paul Dirac Drive , Tallahassee , Florida 32310 , United States
| | - Zhehong Gan
- National High Magnetic Field Laboratory , 1800 East Paul Dirac Drive , Tallahassee , Florida 32310 , United States
| | - Gang Wu
- Department of Chemistry , Queen's University , 90 Bader Lane , Kingston , Ontario , Canada K7L 3N6
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14
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Quinn CM, Wang M, Polenova T. NMR of Macromolecular Assemblies and Machines at 1 GHz and Beyond: New Transformative Opportunities for Molecular Structural Biology. Methods Mol Biol 2018; 1688:1-35. [PMID: 29151202 PMCID: PMC6217836 DOI: 10.1007/978-1-4939-7386-6_1] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
Abstract
As a result of profound gains in sensitivity and resolution afforded by ultrahigh magnetic fields, transformative applications in the fields of structural biology and materials science are being realized. The development of dual low temperature superconducting (LTS)/high-temperature superconducting (HTS) magnets has enabled the achievement of magnetic fields above 1 GHz (23.5 T), which will open doors to an unprecedented new range of applications. In this contribution, we discuss the promise of ultrahigh field magnetic resonance. We highlight several methodological developments pertinent at high-magnetic fields including measurement of 1H-1H distances and 1H chemical shift anisotropy in the solid state as well as studies of quadrupolar nuclei such as 17O. Higher magnetic fields have advanced heteronuclear detection in solution NMR, valuable for applications including metabolomics and disordered proteins, as well as expanded use of proton detection in the solid state in conjunction with ultrafast magic angle spinning. We also present several recent applications to structural studies of the AP205 bacteriophage, the M2 channel from Influenza A, and biomaterials such as human bone. Gains in sensitivity and resolution from increased field strengths will enable advanced applications of NMR spectroscopy including in vivo studies of whole cells and intact virions.
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Affiliation(s)
- Caitlin M Quinn
- Department of Chemistry and Biochemistry, University of Delaware, 036 Brown Laboratories, Newark, DE, 19716, USA
- Pittsburgh Center for HIV Protein Interactions, University of Pittsburgh School of Medicine, 1051 Biomedical Science Tower 3, 3501 Fifth Ave, Pittsburgh, PA, 15261, USA
| | - Mingzhang Wang
- Department of Chemistry and Biochemistry, University of Delaware, 036 Brown Laboratories, Newark, DE, 19716, USA
- Pittsburgh Center for HIV Protein Interactions, University of Pittsburgh School of Medicine, 1051 Biomedical Science Tower 3, 3501 Fifth Ave, Pittsburgh, PA, 15261, USA
| | - Tatyana Polenova
- Department of Chemistry and Biochemistry, University of Delaware, 036 Brown Laboratories, Newark, DE, 19716, USA.
- Pittsburgh Center for HIV Protein Interactions, University of Pittsburgh School of Medicine, 1051 Biomedical Science Tower 3, 3501 Fifth Ave, Pittsburgh, PA, 15261, USA.
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15
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Application of Heteronuclear NMR Spectroscopy to Bioinorganic and Medicinal Chemistry ☆. REFERENCE MODULE IN CHEMISTRY, MOLECULAR SCIENCES AND CHEMICAL ENGINEERING 2018. [PMCID: PMC7157447 DOI: 10.1016/b978-0-12-409547-2.10947-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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16
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Gan Z, Hung I, Wang X, Paulino J, Wu G, Litvak IM, Gor'kov PL, Brey WW, Lendi P, Schiano JL, Bird MD, Dixon IR, Toth J, Boebinger GS, Cross TA. NMR spectroscopy up to 35.2T using a series-connected hybrid magnet. JOURNAL OF MAGNETIC RESONANCE (SAN DIEGO, CALIF. : 1997) 2017; 284:125-136. [PMID: 28890288 PMCID: PMC5675800 DOI: 10.1016/j.jmr.2017.08.007] [Citation(s) in RCA: 95] [Impact Index Per Article: 13.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2017] [Revised: 08/15/2017] [Accepted: 08/17/2017] [Indexed: 05/05/2023]
Abstract
The National High Magnetic Field Laboratory has brought to field a Series-Connected Hybrid magnet for NMR spectroscopy. As a DC powered magnet it can be operated at fields up to 36.1T. The series connection between a superconducting outsert and a resistive insert dramatically minimizes the high frequency fluctuations of the magnetic field typically observed in purely resistive magnets. Current-density-grading among various resistive coils was used for improved field homogeneity. The 48mm magnet bore and 42mm outer diameter of the probes leaves limited space for conventional shims and consequently a combination of resistive and ferromagnetic shims are used. Field maps corrected for field instabilities were obtained and shimming achieved better than 1ppm homogeneity over a cylindrical volume of 1cm diameter and height. The magnetic field is regulated within 0.2ppm using an external 7Li lock sample doped with paramagnetic MnCl2. The improved field homogeneity and field regulation using a modified AVANCE NEO console enables NMR spectroscopy at 1H frequencies of 1.0, 1.2 and 1.5GHz. NMR at 1.5GHz reflects a 50% increase in field strength above the highest superconducting magnets currently available. Three NMR probes have been constructed each equipped with an external lock rf coil for field regulation. Initial NMR results obtained from the SCH magnet using these probes illustrate the very exciting potential of ultra-high magnetic fields.
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Affiliation(s)
- Zhehong Gan
- National High Magnetic Field Laboratory, Tallahassee, FL 32310, United States
| | - Ivan Hung
- National High Magnetic Field Laboratory, Tallahassee, FL 32310, United States
| | - Xiaoling Wang
- National High Magnetic Field Laboratory, Tallahassee, FL 32310, United States
| | - Joana Paulino
- National High Magnetic Field Laboratory, Tallahassee, FL 32310, United States; Department of Chemistry and Biochemistry, Florida State University, Tallahassee, FL 32306, United States; Institute of Molecular Biophysics, Florida State University, Tallahassee, FL 32306, United States
| | - Gang Wu
- Department of Chemistry, Queen's University, Kingston, Ontario K7L 3N6, Canada
| | - Ilya M Litvak
- National High Magnetic Field Laboratory, Tallahassee, FL 32310, United States
| | - Peter L Gor'kov
- National High Magnetic Field Laboratory, Tallahassee, FL 32310, United States
| | - William W Brey
- National High Magnetic Field Laboratory, Tallahassee, FL 32310, United States
| | - Pietro Lendi
- Bruker BioSpin AG, 26, Industriestrasse Fällanden, 8117, Switzerland
| | - Jeffrey L Schiano
- School of Electrical Engineering and Computer Science, Penn State University, University Park, PA 16802, United States
| | - Mark D Bird
- National High Magnetic Field Laboratory, Tallahassee, FL 32310, United States
| | - Iain R Dixon
- National High Magnetic Field Laboratory, Tallahassee, FL 32310, United States
| | - Jack Toth
- National High Magnetic Field Laboratory, Tallahassee, FL 32310, United States
| | - Gregory S Boebinger
- National High Magnetic Field Laboratory, Tallahassee, FL 32310, United States; Department of Physics, Florida State University, Tallahassee, FL 32306, United States
| | - Timothy A Cross
- National High Magnetic Field Laboratory, Tallahassee, FL 32310, United States; Department of Chemistry and Biochemistry, Florida State University, Tallahassee, FL 32306, United States; Institute of Molecular Biophysics, Florida State University, Tallahassee, FL 32306, United States.
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17
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Hung I, Wu G, Gan Z. Second-order quadrupolar line shapes under molecular dynamics: An additional transition in the extremely fast regime. SOLID STATE NUCLEAR MAGNETIC RESONANCE 2017; 84:14-19. [PMID: 28027834 DOI: 10.1016/j.ssnmr.2016.11.002] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/12/2016] [Revised: 11/15/2016] [Accepted: 11/28/2016] [Indexed: 05/11/2023]
Abstract
NMR spectroscopy is a powerful tool for probing molecular dynamics. For the classic case of two-site exchange, NMR spectra go through the transition from exchange broadening through coalescence and then motional narrowing as the exchange rate increases passing through the difference between the resonance frequencies of the two sites. For central-transition spectra of half-integer quadrupolar nuclei in solids, line shape change due to molecular dynamics occurs in two stages. The first stage occurs when the exchange rate is comparable to the second-order quadrupolar interaction. The second spectral transition comes at a faster exchange rate which approaches the Larmor frequency and generally reduces the isotropic quadrupolar shift. Such a two-stage transition phenomenon is unique to half-integer quadrupolar nuclei. A quantum mechanical formalism in full Liouville space is presented to explain the physical origin of the two-stage phenomenon and for use in spectral simulations. Variable-temperature 17O NMR of solid NaNO3 in which the NO3- ion undergoes 3-fold jumps confirms the two-stage transition process. The spectra of NaNO3 acquired in the temperature range of 173-413K agree well with simulations using the quantum mechanical formalism. The rate constants for the 3-fold NO3- ion jumps span eight orders of magnitude (102-1010s-1) covering both transitions of the dynamic 17O line shape.
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Affiliation(s)
- Ivan Hung
- National High Magnetic Field Laboratory, 1800 East Paul Dirac Drive, Tallahassee, FL 32310, USA
| | - Gang Wu
- Department of Chemistry, Queen's University, 90 Bader Lane, Kingston, Ontario, Canada, K7L 3N6
| | - Zhehong Gan
- National High Magnetic Field Laboratory, 1800 East Paul Dirac Drive, Tallahassee, FL 32310, USA.
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18
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Kong X, Dai Y, Wu G. Solid-state 17O NMR study of 2-acylbenzoic acids and warfarin. SOLID STATE NUCLEAR MAGNETIC RESONANCE 2017; 84:59-64. [PMID: 28057400 DOI: 10.1016/j.ssnmr.2016.12.011] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2016] [Revised: 12/14/2016] [Accepted: 12/16/2016] [Indexed: 06/06/2023]
Abstract
We report synthesis and solid-state 17O NMR characterization of four site-specifically 17O-labeled 2-acylbenzoic acids (2-RC(O)C6H4COOH) where R=H and CH3): 2-[3-17O]formylbenzoic acid, 2-[1,2-17O2]formylbenzoic acid, 2-[3-17O]acetylbenzoic acid, and 2-[1,2,3-17O3]acetylbenzoic acid. In the solid state, both 2-formyl- and 2-acetyl-benzoic acids exist as the cyclic phthalide form each containing a five-membered lactone ring and a cyclic hemiacetal/hemiketal group. Static and magic-angle-spinning 17O NMR spectra were recorded at 14.1 and 21.1T for these compounds, from which the 17O chemical shift and nuclear quadrupolar coupling tensors were determined for each oxygen site. These results represent the first time that 17O NMR tensors are fully characterized for lactone, cyclic hemiacetal, and cyclic hemiketal functional groups. We also report solid-state 17O NMR data for the cyclic hemiketal group an anticoagulant drug, warfarin. Experimental 17O NMR tensors in these compounds were compared with computational results obtained with a periodic DFT code BAND.
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Affiliation(s)
- Xianqi Kong
- Department of Chemistry, Queen's University, 90 Bader Lane, Kingston, Ontario, Canada K7L 3N6
| | - Yizhe Dai
- Department of Chemistry, Queen's University, 90 Bader Lane, Kingston, Ontario, Canada K7L 3N6
| | - Gang Wu
- Department of Chemistry, Queen's University, 90 Bader Lane, Kingston, Ontario, Canada K7L 3N6.
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19
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Tang AW, Kong X, Terskikh V, Wu G. Solid-State 17O NMR of Unstable Acyl-Enzyme Intermediates: A Direct Probe of Hydrogen Bonding Interactions in the Oxyanion Hole of Serine Proteases. J Phys Chem B 2016; 120:11142-11150. [PMID: 27731644 DOI: 10.1021/acs.jpcb.6b08798] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We report preparation, trapping, and solid-state 17O NMR characterization of three unstable acyl-enzyme intermediates (≈ 26 kDa): p-N,N-dimethylamino-[17O]benzoyl-chymotrypsin, trans-o-methoxy-[17O]cinnamoyl-chymotrypsin, and trans-p-methoxy-[17O]cinnamoyl-chymotrypsin. We show that both the 17O chemical shifts and nuclear quadrupolar parameters obtained for these acyl-enzyme intermediates in the solid state are correlated with their deacylation rate constants measured in aqueous solution. With the aid of quantum mechanical calculations, the experimental 17O NMR parameters were interpreted as to reflect the hydrogen bonding interactions between the carbonyl (C═17O) functional group of the acyl moiety and the two NH groups from the protein backbone (Ser195 and Gly193) in the oxyanion hole, a general feature of all serine proteases. Our results further suggest that the 17O chemical shift and quadrupole coupling constant display distinctly different sensitivities toward different aspects of hydrogen bonding, such as hydrogen bond distance and direction. This work demonstrates the utility of 17O as a useful nuclear probe in NMR studies of enzymes.
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Affiliation(s)
- Aaron W Tang
- Department of Chemistry, Queen's University , 90 Bader Lane, Kingston, Ontario K7L 3N6, Canada
| | - Xianqi Kong
- Department of Chemistry, Queen's University , 90 Bader Lane, Kingston, Ontario K7L 3N6, Canada
| | - Victor Terskikh
- Department of Chemistry, Queen's University , 90 Bader Lane, Kingston, Ontario K7L 3N6, Canada.,Department of Chemistry, University of Ottawa , Ottawa, Ontario K1N 6N5, Canada
| | - Gang Wu
- Department of Chemistry, Queen's University , 90 Bader Lane, Kingston, Ontario K7L 3N6, Canada
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20
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Shen J, Terskikh V, Wu G. Observation of the Second-Order Quadrupolar Interaction as a Dominating NMR Relaxation Mechanism in Liquids: The Ultraslow Regime of Motion. J Phys Chem Lett 2016; 7:3412-3418. [PMID: 27525537 DOI: 10.1021/acs.jpclett.6b01530] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
We report variable-temperature (VT) (17)O NMR spectra of [5-(17)O]-d-glucose in an aqueous solution and in glycerol at 14.1 and 21.1 T. The VT (17)O NMR data cover a wide range of motion for which the molecular rotational correlation time (τc) of glucose changes more than 5 orders of magnitude. The observed line width of the (17)O NMR signal for [5-(17)O]-d-glucose displays a maximum at ω0τc ≈ 1 and a minimum at ω0τc ≈ 150, where ω0 is the angular Larmor frequency of (17)O. Under the ultraslow motion condition (i.e., ω0τc > 150), the line width of the observed (17)O NMR signal increases drastically with τc, suggesting that the second-order quadrupolar interaction becomes the predominant relaxation mechanism. While this relaxation mechanism has long been predicted by theory, the current study reports the first experimental observation of such a phenomenon. The implications of this new relaxation mechanism on the spectral resolution limit in liquid-state NMR spectroscopy for half-integer spins are discussed.
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Affiliation(s)
- Jiahui Shen
- Department of Chemistry, Queen's University , Kingston, Ontario K7L 3N6, Canada
| | - Victor Terskikh
- Department of Chemistry, Queen's University , Kingston, Ontario K7L 3N6, Canada
- Department of Chemistry, University of Ottawa , Ottawa, Ontario K1N 6N5 Canada
| | - Gang Wu
- Department of Chemistry, Queen's University , Kingston, Ontario K7L 3N6, Canada
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21
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Wu G. An approximate analytical expression for the nuclear quadrupole transverse relaxation rate of half-integer spins in liquids. JOURNAL OF MAGNETIC RESONANCE (SAN DIEGO, CALIF. : 1997) 2016; 269:176-178. [PMID: 27343483 DOI: 10.1016/j.jmr.2016.06.012] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2016] [Revised: 06/15/2016] [Accepted: 06/16/2016] [Indexed: 06/06/2023]
Abstract
The nuclear quadrupole transverse relaxation process of half-integer spins in liquid samples is known to exhibit multi-exponential behaviors. Within the framework of Redfield's relaxation theory, exact analytical expressions for describing such a process exist only for spin-3/2 nuclei. As a result, analyses of nuclear quadrupole transverse relaxation data for half-integer quadrupolar nuclei with spin >3/2 must rely on numerical diagonalization of the Redfield relaxation matrix over the entire motional range. In this work we propose an approximate analytical expression that can be used to analyze nuclear quadrupole transverse relaxation data of any half-integer spin in liquids over the entire motional range. The proposed equation yields results that are in excellent agreement with the exact numerical calculations.
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Affiliation(s)
- Gang Wu
- Department of Chemistry, Queen's University, 90 Bader Lane, Kingston, Ontario K7L 3N6, Canada.
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22
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Wu G. Solid-State ¹⁷O NMR studies of organic and biological molecules: Recent advances and future directions. SOLID STATE NUCLEAR MAGNETIC RESONANCE 2016; 73:1-14. [PMID: 26651417 DOI: 10.1016/j.ssnmr.2015.11.001] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2015] [Revised: 11/20/2015] [Accepted: 11/24/2015] [Indexed: 05/04/2023]
Abstract
This Trends article highlights the recent advances published between 2012 and 2015 in solid-state (17)O NMR for organic and biological molecules. New developments in the following areas are described: (1) new oxygen-containing functional groups, (2) metal organic frameworks, (3) pharmaceuticals, (4) probing molecular motion in organic solids, (5) dynamic nuclear polarization, and (6) paramagnetic coordination compounds. For each of these areas, the author offers his personal views on important problems to be solved and possible future directions.
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Affiliation(s)
- Gang Wu
- Department of Chemistry, Queen's University, 90 Bader Lane, Kingston, Ontario, Canada K7L 3N6
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23
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Young RP, Caulkins BG, Borchardt D, Bulloch DN, Larive CK, Dunn MF, Mueller LJ. Solution-State (17)O Quadrupole Central-Transition NMR Spectroscopy in the Active Site of Tryptophan Synthase. Angew Chem Int Ed Engl 2015; 55:1350-4. [PMID: 26661504 DOI: 10.1002/anie.201508898] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2015] [Indexed: 11/09/2022]
Abstract
Oxygen is an essential participant in the acid-base chemistry that takes place within many enzyme active sites, yet has remained virtually silent as a probe in NMR spectroscopy. Here, we demonstrate the first use of solution-state (17)O quadrupole central-transition NMR spectroscopy to characterize enzymatic intermediates under conditions of active catalysis. In the 143 kDa pyridoxal-5'-phosphate-dependent enzyme tryptophan synthase, reactions of the α-aminoacrylate intermediate with the nucleophiles indoline and 2-aminophenol correlate with an upfield shift of the substrate carboxylate oxygen resonances. First principles calculations suggest that the increased shieldings for these quinonoid intermediates result from the net increase in the charge density of the substrate-cofactor π-bonding network, particularly at the adjacent α-carbon site.
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Affiliation(s)
- Robert P Young
- Department of Chemistry, University of California, Riverside, Riverside, CA, 92521, USA
| | - Bethany G Caulkins
- Department of Chemistry, University of California, Riverside, Riverside, CA, 92521, USA
| | - Dan Borchardt
- Department of Chemistry, University of California, Riverside, Riverside, CA, 92521, USA
| | - Daryl N Bulloch
- Department of Chemistry, University of California, Riverside, Riverside, CA, 92521, USA
| | - Cynthia K Larive
- Department of Chemistry, University of California, Riverside, Riverside, CA, 92521, USA
| | - Michael F Dunn
- Department of Biochemistry, University of California, Riverside, Riverside, CA, 92521, USA
| | - Leonard J Mueller
- Department of Chemistry, University of California, Riverside, Riverside, CA, 92521, USA.
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24
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Young RP, Caulkins BG, Borchardt D, Bulloch DN, Larive CK, Dunn MF, Mueller LJ. Solution‐State
17
O Quadrupole Central‐Transition NMR Spectroscopy in the Active Site of Tryptophan Synthase. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201508898] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Robert P. Young
- Department of Chemistry University of California, Riverside Riverside CA 92521 USA
| | - Bethany G. Caulkins
- Department of Chemistry University of California, Riverside Riverside CA 92521 USA
| | - Dan Borchardt
- Department of Chemistry University of California, Riverside Riverside CA 92521 USA
| | - Daryl N. Bulloch
- Department of Chemistry University of California, Riverside Riverside CA 92521 USA
| | - Cynthia K. Larive
- Department of Chemistry University of California, Riverside Riverside CA 92521 USA
| | - Michael F. Dunn
- Department of Biochemistry University of California, Riverside Riverside CA 92521 USA
| | - Leonard J. Mueller
- Department of Chemistry University of California, Riverside Riverside CA 92521 USA
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25
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Kong X, Terskikh V, Toubaei A, Wu G. A solid-state 17O NMR study of platinum-carboxylate complexes: carboplatin and oxaliplatin. CAN J CHEM 2015. [DOI: 10.1139/cjc-2015-0019] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
We report synthesis and solid-state NMR characterization of two 17O-labeled platinum anticancer drugs: cis-diammine(1,1-cyclobutane-[17O4]dicarboxylato)platinum(II) (carboplatin) and ([17O4]oxalato)[(1R, 2R)-(−)-1,2-cyclohexanediamine)]platinum(II) (oxaliplatin). Both 17O chemical shift (CS) and quadrupolar coupling (QC) tensors were measured for the carboxylate groups in these two compounds. With the aid of plane wave DFT computations, the 17O CS and QC tensor orientations were determined in the molecular frame of reference. Significant changes in the 17O CS and QC tensors were observed for the carboxylate oxygen atom upon its coordination to Pt(II). In particular, the 17O isotropic chemical shifts for the oxygen atoms directly bonded to Pt(II) are found to be smaller (more shielded) by 200 ppm than those for the non-Pt-coordinated oxygen atoms within the same carboxylate group. Examination of the 17O CS tensor components reveals that such a large 17O coordination shift is primarily due to the shielding increase along the direction that is within the O=C–O–Pt plane and perpendicular to the O–Pt bond. This result is interpreted as due to the σ donation from the oxygen nonbonding orbital (electron lone pair) to the Pt(II) empty dyz orbital, which results in large energy gaps between σ(Pt–O) and unoccupied molecular orbitals, thus reducing the paramagnetic shielding contribution along the direction perpendicular to the O–Pt bond. We found that the 17O QC tensor of the carboxylate oxygen is also sensitive to Pt(II) coordination, and that 17O CS and QC tensors provide complementary information about the O–Pt bonding.
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Affiliation(s)
- Xianqi Kong
- Department of Chemistry, Queen’s University, 90 Bader Lane, Kingston, ON K7L 3N6, Canada
| | - Victor Terskikh
- Department of Chemistry, Queen’s University, 90 Bader Lane, Kingston, ON K7L 3N6, Canada
- Department of Chemistry, University of Ottawa, Ottawa, ON K1N 6N5, Canada
| | - Abouzar Toubaei
- Department of Chemistry, Queen’s University, 90 Bader Lane, Kingston, ON K7L 3N6, Canada
| | - Gang Wu
- Department of Chemistry, Queen’s University, 90 Bader Lane, Kingston, ON K7L 3N6, Canada
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26
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Kong X, Terskikh VV, Khade RL, Yang L, Rorick A, Zhang Y, He P, Huang Y, Wu G. Solid-state ¹⁷O NMR spectroscopy of paramagnetic coordination compounds. Angew Chem Int Ed Engl 2015; 54:4753-7. [PMID: 25694203 PMCID: PMC4418630 DOI: 10.1002/anie.201409888] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2014] [Indexed: 11/09/2022]
Abstract
High-quality solid-state (17)O (I=5/2) NMR spectra can be successfully obtained for paramagnetic coordination compounds in which oxygen atoms are directly bonded to the paramagnetic metal centers. For complexes containing V(III) (S=1), Cu(II) (S=1/2), and Mn(III) (S=2) metal centers, the (17)O isotropic paramagnetic shifts were found to span a range of more than 10,000 ppm. In several cases, high-resolution (17)O NMR spectra were recorded under very fast magic-angle spinning (MAS) conditions at 21.1 T. Quantum-chemical computations using density functional theory (DFT) qualitatively reproduced the experimental (17)O hyperfine shift tensors.
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Affiliation(s)
- Xianqi Kong
- Department of Chemistry, Queen's University Kingston, Ontario, K7L 3N6 (Canada)
| | - Victor V. Terskikh
- Department of Chemistry, University of Ottawa Ottawa, Ontario, K1N 6N5 (Canada)
| | - Rahul L. Khade
- Department of Chemistry, Chemical Biology, and Biomedical Engineering, Stevens Institute of Technology Castle Point on Hudson, Hoboken, New Jersey 07030 (USA)
| | - Liu Yang
- Department of Chemistry, Chemical Biology, and Biomedical Engineering, Stevens Institute of Technology Castle Point on Hudson, Hoboken, New Jersey 07030 (USA)
| | - Amber Rorick
- Department of Chemistry, Chemical Biology, and Biomedical Engineering, Stevens Institute of Technology Castle Point on Hudson, Hoboken, New Jersey 07030 (USA)
| | - Yong Zhang
- Department of Chemistry, Chemical Biology, and Biomedical Engineering, Stevens Institute of Technology Castle Point on Hudson, Hoboken, New Jersey 07030 (USA)
| | - Peng He
- Department of Chemistry, University of Western Ontario London, Ontario, N6A 5B7 (Canada)
| | - Yining Huang
- Department of Chemistry, University of Western Ontario London, Ontario, N6A 5B7 (Canada)
| | - Gang Wu
- Department of Chemistry, Queen's University Kingston, Ontario, K7L 3N6 (Canada)
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27
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Kong X, Terskikh VV, Khade RL, Yang L, Rorick A, Zhang Y, He P, Huang Y, Wu G. Solid-State17O NMR Spectroscopy of Paramagnetic Coordination Compounds. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201409888] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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28
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Abstract
(1)H-, (11)B-, (13)C-, (15)N-, (17)O-, (19)F-, and (31)P-NMR chemical shifts of flavocoenzymes and derivatives of it, as well as of alloxazines and isoalloxazinium salts, from NMR experiments performed under various experimental conditions (e.g., dependence of the chemical shifts on temperature, concentration, solvent polarity, and pH) are reported. Also solid-state (13)C- and (15)N-NMR experiments are described revealing the anisotropic values of corresponding chemical shifts. These data, in combination with a number of coupling constants, led to a detailed description of the electronic structure of oxidized and reduced flavins. The data also demonstrate that the structure of oxidized flavin can assume a configuration deviating from coplanarity, depending on substitutions in the isoalloxazine ring, while that of reduced flavin exhibits several configurations, from almost planar to quite bended. The complexes formed between oxidized flavin and metal ions or organic molecules revealed three coordination sites with metal ions (depending on the chemical nature of the ion), and specific interactions between the pyrimidine moiety of flavin and organic molecules, mimicking specific interactions between apoflavoproteins and their coenzymes. Most NMR studies on flavoproteins were performed using (13)C- and (15)N-substituted coenzymes, either specifically enriched in the pterin moiety of flavin or uniformly labeled flavins. The chemical shifts of free flavins are used as a guide in the interpretation of the chemical shifts observed in flavoproteins. Although the hydrogen-bonding pattern in oxidized and reduced flavoproteins varies considerably, no correlation is obvious between these patterns and the corresponding redox potentials. In all reduced flavoproteins the N(1)H group of the flavocoenzyme is deprotonated, an exception is thioredoxin reductase. Three-dimensional structures of only a few flavoproteins, mostly belonging to the family of flavodoxins, have been solved. Also the kinetics of unfolding and refolding of flavodoxins has been investigated by NMR techniques. In addition, (31)P-NMR data of all so far studied flavoproteins and some (19)F-NMR spectra are discussed.
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Affiliation(s)
- Franz Müller
- , Wylstrasse 13, CH-6052, Hergiswil, Switzerland,
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29
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Kong X, Shan M, Terskikh V, Hung I, Gan Z, Wu G. Solid-State 17O NMR of Pharmaceutical Compounds: Salicylic Acid and Aspirin. J Phys Chem B 2013; 117:9643-54. [DOI: 10.1021/jp405233f] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Xianqi Kong
- Department
of Chemistry, Queen’s University, 90 Bader Lane, Kingston,
Ontario, K7L 3N6, Canada
| | - Melissa Shan
- Department
of Chemistry, Queen’s University, 90 Bader Lane, Kingston,
Ontario, K7L 3N6, Canada
| | - Victor Terskikh
- Department
of Chemistry, Queen’s University, 90 Bader Lane, Kingston,
Ontario, K7L 3N6, Canada
- National Research Council Canada, 100 Sussex Drive, Ottawa, Ontario, K1A
0R6, Canada
| | - Ivan Hung
- Center of Interdisciplinary
Magnetic
Resonance, National High Magnetic Field Laboratory, 1800 East Paul Dirac Drive, Tallahassee, Florida 32310, United
States
| | - Zhehong Gan
- Center of Interdisciplinary
Magnetic
Resonance, National High Magnetic Field Laboratory, 1800 East Paul Dirac Drive, Tallahassee, Florida 32310, United
States
| | - Gang Wu
- Department
of Chemistry, Queen’s University, 90 Bader Lane, Kingston,
Ontario, K7L 3N6, Canada
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30
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Hanashima S, Fujiwara N, Matsumoto K, Iwasaki N, Zheng GQ, Torigoe H, Suzuki K, Taniguchi N, Yamaguchi Y. A solution 17O-NMR approach for observing an oxidized cysteine residue in Cu,Zn-superoxide dismutase. Chem Commun (Camb) 2013; 49:1449-51. [PMID: 23323266 DOI: 10.1039/c2cc36918d] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
Solution (17)O-NMR application to biological macromolecules is extremely limited. We describe here (17)O-NMR observation of the (17)O(2)-oxidized cysteine side chain of human Cu,Zn-superoxide dismutase in solution using selective (17)O(2) oxidation. (17)O-NMR with the aid of (17)O-labeling has wide potential to probe the environment and dynamics of oxidizable functionalities in proteins.
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Affiliation(s)
- Shinya Hanashima
- Structural Glycobiology Team, RIKEN ASI, 2-1 Hirosawa, Wako-shi, 351-0198 Saitama, Japan
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31
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Fusaro L, Mameli G, Mocci F, Luhmer M, Cerioni G. Dynamic NMR of low-sensitivity fast-relaxing nuclei: (17)O NMR and DFT study of acetoxysilanes. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2012; 50:152-158. [PMID: 22374872 DOI: 10.1002/mrc.3794] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/07/2011] [Revised: 12/22/2011] [Accepted: 01/03/2012] [Indexed: 05/31/2023]
Abstract
(17)O NMR is not routinely used for structure characterization, and kinetic studies of fluxional organic compounds are seldom undertaken because poor sensitivity and fast quadrupole relaxation are frequently regarded as intractable issues. This work shows how, nowadays, quantitative (17)O dynamic NMR studies on small organic molecules are feasible without enrichment being needed. It reports on acetoxysilanes, a class of fluxional compounds whose structure and dynamics were to be clarified. Natural abundance (17)O NMR spectra were recorded over a wide range of temperatures using standard instrumentation. The analysis relies on simple linewidth measurements and directly provides the activation parameters. The activation enthalpy is found to decrease with increasing number of acetoxy groups bound to silicon. Density functional theory calculations properly predict this trend and show that a single oxygen atom of the acetoxy group is bound to silicon, excluding chelation as binding mode, and that the dynamic process involves the shift of the silicon atom between the two oxygen atoms of the acetoxy group.
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Affiliation(s)
- Luca Fusaro
- Laboratoire de Résonance Magnétique Nucléaire Haute Résolution CP 160/08, Université Libre de Bruxelles, Bruxelles, Belgium
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