1
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Toomey R, Powell J, Cheever J, Harper JK. Distinguishing between COOH, COO - , and hydrogen disordered COOH sites in solids with 13 C chemical shift anisotropy and T 1 measurements. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2024; 62:190-197. [PMID: 38237932 DOI: 10.1002/mrc.5425] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/19/2023] [Revised: 11/24/2023] [Accepted: 12/21/2023] [Indexed: 02/13/2024]
Abstract
Since 1993, it has been known that 13 C chemical shift tensor (i.e., δ11 , δ22 , and δ33 ) provides information sufficient to distinguish between COOH and COO- sites. Herein, four previously unreported metrics are proposed for differentiating COOH/COO- moieties. A new relationship is also introduced that correlates the asymmetry (i.e., δ11 -δ22 ) of COOH sites to the proximity of hydrogen bond donating partners within 2.6 Å with high accuracy (±0.05 Å). Conversely, a limitation to all proposed metrics is that they fail to distinguish between COO- and hydrogen disordered COOH sites. To reconcile this omission, a new approach is proposed based on T1 measurements of both 1 H and 13 C. The 13 C T1 values are particularly sensitive with the T1 for hydrogen disordered COOH moieties found to be nearly six times smaller than T1 's from COO- sites.
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Affiliation(s)
- Ryan Toomey
- Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah, USA
| | - Jacob Powell
- Department of Chemistry, Drexel University, Philadelphia, Pennsylvania, USA
| | - Jacob Cheever
- Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah, USA
| | - James K Harper
- Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah, USA
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2
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Rehman Z, Franks WT, Nguyen B, Schmidt HF, Scrivens G, Brown SP. Discovering the Solid-State Secrets of Lorlatinib by NMR Crystallography: To Hydrogen Bond or not to Hydrogen Bond. J Pharm Sci 2023; 112:1915-1928. [PMID: 36868358 DOI: 10.1016/j.xphs.2023.02.022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2022] [Revised: 02/22/2023] [Accepted: 02/22/2023] [Indexed: 03/05/2023]
Abstract
Lorlatinib is an active pharmaceutical ingredient (API) used in the treatment of lung cancer. Here, an NMR crystallography analysis is presented whereby the single-crystal X-ray diffraction structure (CSD: 2205098) determination is complemented by multinuclear (1H, 13C, 14/15N, 19F) magic-angle spinning (MAS) solid-state NMR and gauge-including projector augmented wave (GIPAW) calculation of NMR chemical shifts. Lorlatinib crystallises in the P21 space group, with two distinct molecules in the asymmetric unit cell, Z' = 2. Three of the four NH2 hydrogen atoms form intermolecular hydrogen bonds, N30-H…N15 between the two distinct molecules and N30-H…O2 between two equivalent molecules. This is reflected in one of the NH21H chemical shifts being significantly lower, 4.0 ppm compared to 7.0 ppm. Two-dimensional 1H-13C, 14N-1H and 1H (double-quantum, DQ)-1H (single-quantum, SQ) MAS NMR spectra are presented. The 1H resonances are assigned and specific HH proximities corresponding to the observed DQ peaks are identified. The resolution enhancement at a 1H Larmor frequency of 1 GHz as compared to 500 or 600 MHz is demonstrated.
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Affiliation(s)
- Zainab Rehman
- Department of Physics, University of Warwick, Coventry, CV4 7AL, UK
| | - W Trent Franks
- Department of Physics, University of Warwick, Coventry, CV4 7AL, UK
| | | | | | | | - Steven P Brown
- Department of Physics, University of Warwick, Coventry, CV4 7AL, UK.
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3
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Tatman BP, Franks WT, Brown SP, Lewandowski JR. Nuclear spin diffusion under fast magic-angle spinning in solid-state NMR. J Chem Phys 2023; 158:2890210. [PMID: 37171196 DOI: 10.1063/5.0142201] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2023] [Accepted: 04/10/2023] [Indexed: 05/13/2023] Open
Abstract
Solid-state nuclear spin diffusion is the coherent and reversible process through which spin order is transferred via dipolar couplings. With the recent increases in magic-angle spinning (MAS) frequencies and magnetic fields becoming routinely applied in solid-state nuclear magnetic resonance, understanding how the increased 1H resolution obtained affects spin diffusion is necessary for interpretation of several common experiments. To investigate the coherent contributions to spin diffusion with fast MAS, we have developed a low-order correlation in Liouville space model based on the work of Dumez et al. (J. Chem. Phys. 33, 224501, 2010). Specifically, we introduce a new method for basis set selection, which accounts for the resonance-offset dependence at fast MAS. Furthermore, we consider the necessity of including chemical shift, both isotropic and anisotropic, in the modeling of spin diffusion. Using this model, we explore how different experimental factors change the nature of spin diffusion. Then, we show case studies to exemplify the issues that arise in using spin diffusion techniques at fast spinning. We show that the efficiency of polarization transfer via spin diffusion occurring within a deuterated and 100% back-exchanged protein sample at 60 kHz MAS is almost entirely dependent on resonance offset. We additionally identify temperature-dependent magnetization transfer in beta-aspartyl L-alanine, which could be explained by the influence of an incoherent relaxation-based nuclear Overhauser effect.
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Affiliation(s)
- Ben P Tatman
- Department of Physics, University of Warwick, Coventry CV4 7AL, United Kingdom
- Department of Chemistry, University of Warwick, Coventry CV4 7AL, United Kingdom
| | - W Trent Franks
- Department of Physics, University of Warwick, Coventry CV4 7AL, United Kingdom
| | - Steven P Brown
- Department of Physics, University of Warwick, Coventry CV4 7AL, United Kingdom
| | - Józef R Lewandowski
- Department of Chemistry, University of Warwick, Coventry CV4 7AL, United Kingdom
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4
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Zwitterionic or Not? Fast and Reliable Structure Determination by Combining Crystal Structure Prediction and Solid-State NMR. Molecules 2023; 28:molecules28041876. [PMID: 36838863 PMCID: PMC9966216 DOI: 10.3390/molecules28041876] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2023] [Revised: 02/06/2023] [Accepted: 02/10/2023] [Indexed: 02/18/2023] Open
Abstract
When it comes to crystal structure determination, computational approaches such as Crystal Structure Prediction (CSP) have gained more and more attention since they offer some insight on how atoms and molecules are packed in the solid state, starting from only very basic information without diffraction data. Furthermore, it is well known that the coupling of CSP with solid-state NMR (SSNMR) greatly enhances the performance and the accuracy of the predictive method, leading to the so-called CSP-NMR crystallography (CSP-NMRX). In this paper, we present the successful application of CSP-NMRX to determine the crystal structure of three structural isomers of pyridine dicarboxylic acid, namely quinolinic, dipicolinic and dinicotinic acids, which can be in a zwitterionic form, or not, in the solid state. In a first step, mono- and bidimensional SSNMR spectra, i.e., 1H Magic-Angle Spinning (MAS), 13C and 15N Cross Polarisation Magic-Angle Spinning (CPMAS), 1H Double Quantum (DQ) MAS, 1H-13C HETeronuclear CORrelation (HETCOR), were used to determine the correct molecular structure (i.e., zwitterionic or not) and the local molecular arrangement; at the end, the RMSEs between experimental and computed 1H and 13C chemical shifts allowed the selection of the correct predicted structure for each system. Interestingly, while quinolinic and dipicolinic acids are zwitterionic and non-zwitterionic, respectively, in the solid state, dinicotinic acid exhibits in its crystal structure a "zwitterionic-non-zwitterionic continuum state" in which the proton is shared between the carboxylic moiety and the pyridinic nitrogen. Very refined SSNMR experiments were carried out, i.e., 14N-1H Phase-Modulated (PM) pulse and Rotational-Echo Saturation-Pulse Double-Resonance (RESPDOR), to provide an accurate N-H distance value confirming the hybrid nature of the molecule. The CSP-NMRX method showed a remarkable match between the selected structures and the experimental ones. The correct molecular input provided by SSNMR reduced the number of CSP calculations to be performed, leading to different predicted structures, while RMSEs provided an independent parameter with respect to the computed energy for the selection of the best candidate.
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5
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Cho SK, Lee KM, Kang SH, Jeong K, Han SP, Lee JE, Lee S, Shin TJ, Ryu JH, Yang C, Kwak SK, Lee SY. Ion slippage through Li +-centered G-quadruplex. SCIENCE ADVANCES 2022; 8:eabp8751. [PMID: 36103528 PMCID: PMC9473610 DOI: 10.1126/sciadv.abp8751] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/03/2022] [Accepted: 07/29/2022] [Indexed: 06/15/2023]
Abstract
Single-ion conductors have garnered attention in energy storage systems as a promising alternative to currently widespread electrolytes that allow migration of cations and anions. However, ion transport phenomena of most single-ion conductors are affected by strong ion (e.g., Li+)-ion (immobilized anionic domains) interactions and tortuous paths, which pose an obstacle to achieving performance breakthroughs. Here, we present a Li+-centered G-quadruplex (LiGQ) as a class of single-ion conductor based on directional Li+ slippage at the microscopic level. A guanine derivative with liquid crystalline moieties is self-assembled to form a hexagonal ordered columnar structure in the LiGQ, thereby yielding one-dimensional central channels that provide weak ion-dipole interaction and straightforward ionic pathways. The LiGQ exhibits weak Li+ binding energy and low activation energy for ion conduction, verifying its viability as a new electrolyte design.
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Affiliation(s)
- Seok-Kyu Cho
- Secondary Battery Materials Research Center, Research Institute of Industrial Science and Technology (RIST), 67 Cheongam-ro, Nam-gu, Pohang-si, Gyeongsangbuk-do 37673, Republic of Korea
| | - Kyung Min Lee
- Department of Energy Engineering, School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, Republic of Korea
| | - So-Huei Kang
- Department of Energy Engineering, School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, Republic of Korea
- Department of Chemistry, McGill University, 801 Sherbrooke St West, Montreal, QC H3A 0B8, Canada
| | - Kihun Jeong
- Department of Chemical and Biomolecular Engineering, Yonsei University, 50 Yonsei-ro, Seodaemun-gu, Seoul 03722, Republic of Korea
| | - Sun-Phil Han
- UNIST Central Research Facilities (UCRF), Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, Republic of Korea
| | - Ji Eun Lee
- Department of Energy Engineering, School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, Republic of Korea
| | - Seungho Lee
- Department of Chemistry, School of Natural Science, Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, Republic of Korea
| | - Tae Joo Shin
- UNIST Central Research Facilities (UCRF), Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, Republic of Korea
| | - Ja-Hyoung Ryu
- Department of Chemistry, School of Natural Science, Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, Republic of Korea
| | - Changduk Yang
- Department of Energy Engineering, School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, Republic of Korea
| | - Sang Kyu Kwak
- Department of Energy Engineering, School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, Republic of Korea
| | - Sang-Young Lee
- Department of Chemical and Biomolecular Engineering, Yonsei University, 50 Yonsei-ro, Seodaemun-gu, Seoul 03722, Republic of Korea
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Birolo R, Bravetti F, Bordignon S, D’Abbrunzo I, Mazzeo PP, Perissutti B, Bacchi A, Chierotti MR, Gobetto R. Overcoming the Drawbacks of Sulpiride by Means of New Crystal Forms. Pharmaceutics 2022; 14:pharmaceutics14091754. [PMID: 36145502 PMCID: PMC9501926 DOI: 10.3390/pharmaceutics14091754] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2022] [Revised: 08/06/2022] [Accepted: 08/10/2022] [Indexed: 11/16/2022] Open
Abstract
This study aims at developing new multicomponent crystal forms of sulpiride, an antipsychotic drug. The main goal was to improve its solubility since it belongs to class IV of the BCS. Nine new adducts were obtained by combining the active pharmaceutical ingredient with acid coformers: a salt cocrystal and eight molecular salts. In addition, three novel co-drugs, of which two are molecular salts and one is a cocrystal, were also achieved. All samples were characterized in the solid state by complementary techniques (i.e., infrared spectroscopy, powder X-ray diffraction and solid-state NMR). For systems for which it was possible to obtain good-quality single crystals, the structure was solved by single crystal X-ray diffraction (SCXRD). SCXRD combined with solid-state NMR were used to evaluate the ionic or neutral character of the adducts. In vitro dissolution tests of the new crystal forms were performed and all the adducts display remarkable dissolution properties with respect to pure sulpiride.
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Affiliation(s)
- Rebecca Birolo
- Department of Chemistry, University of Torino, 10125 Torino, Italy
| | | | - Simone Bordignon
- Department of Chemistry, University of Torino, 10125 Torino, Italy
| | - Ilenia D’Abbrunzo
- Department of Chemical and Pharmaceutical Sciences, University of Trieste, 34127 Trieste, Italy
| | - Paolo P. Mazzeo
- Department of Chemical, Life and Environmental Sustainability Sciences, University of Parma, 43124 Parma, Italy
| | - Beatrice Perissutti
- Department of Chemical and Pharmaceutical Sciences, University of Trieste, 34127 Trieste, Italy
| | - Alessia Bacchi
- Department of Chemical, Life and Environmental Sustainability Sciences, University of Parma, 43124 Parma, Italy
| | - Michele R. Chierotti
- Department of Chemistry, University of Torino, 10125 Torino, Italy
- Correspondence: (M.R.C.); (R.G.)
| | - Roberto Gobetto
- Department of Chemistry, University of Torino, 10125 Torino, Italy
- Correspondence: (M.R.C.); (R.G.)
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7
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Kang SH, Lee KM, Cho SK, Lee JE, Won D, Lee SY, Kwak SK, Yang C. Guanine-Based G-Quadruplexes Templated by Various Cations toward Potential Use as Single-Ion Conductors. CHEMSUSCHEM 2022; 15:e202102201. [PMID: 34929057 DOI: 10.1002/cssc.202102201] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2021] [Revised: 12/18/2021] [Indexed: 06/14/2023]
Abstract
Inspired by the atomic-sized, shape-regulated features of G-quadruplexes comprising guanine motifs with a monovalent metal cation, the G-quadruplex-forming ability, and properties of a guanine-based π-conjugated Y2 molecule containing bithiophene and peripheral dodecyl chain units in the presence of various cation salts (Li+ , Na+ , K+ , and Mg2+ ) were exploited. A series of structural characterization revealed that Y2 yielded desirable G-quadruplexes with all the tested cations as a consequence of the combination of a hydrogen-bonded cyclic G-quartet, π-stacking, and cation-dipole interactions. The radius and nature of the coordinating cations crucially affected the structural characteristics of G-quadruplexes, leading to variations in the ion migration ability inside the cavity of the G-quadruplex (Li+ >Na+ >K+ >Mg2+ ), as characterized through theoretical and experimental investigations. These results not only improve the understanding of G-quadruplex self-assemblies based on guanine but also provide an impetus for their diverse potential applications, especially in the field of Li batteries.
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Affiliation(s)
- So-Huei Kang
- School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Eonyang-eup, Ulju-gun, Ulsan, 44919 (Republic of, Korea
- Department of Chemistry, McGill University, 801 Sherbrooke St West, Montreal, QC H3 A 0B8, Canada
| | - Kyung Min Lee
- School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Eonyang-eup, Ulju-gun, Ulsan, 44919 (Republic of, Korea
| | - Seok-Kyu Cho
- Department of Chemical and Biomolecular Engineering, Yonsei University, 50 Yonsei-ro, Seodaemun-gu, Seoul, 03722 (Republic of, Korea
| | - Ji Eun Lee
- School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Eonyang-eup, Ulju-gun, Ulsan, 44919 (Republic of, Korea
| | - Donghoo Won
- School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Eonyang-eup, Ulju-gun, Ulsan, 44919 (Republic of, Korea
| | - Sang-Young Lee
- Department of Chemical and Biomolecular Engineering, Yonsei University, 50 Yonsei-ro, Seodaemun-gu, Seoul, 03722 (Republic of, Korea
| | - Sang Kyu Kwak
- School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Eonyang-eup, Ulju-gun, Ulsan, 44919 (Republic of, Korea
| | - Changduk Yang
- School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Eonyang-eup, Ulju-gun, Ulsan, 44919 (Republic of, Korea
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8
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Kotova O, O’Reilly C, Barwich ST, Mackenzie LE, Lynes AD, Savyasachi AJ, Ruether M, Pal R, Möbius ME, Gunnlaugsson T. Lanthanide luminescence from supramolecular hydrogels consisting of bio-conjugated picolinic-acid-based guanosine quadruplexes. Chem 2022. [DOI: 10.1016/j.chempr.2022.01.015] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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9
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Bravetti F, Bordignon S, Alig E, Eisenbeil D, Fink L, Nervi C, Gobetto R, Schmidt MU, Chierotti MR. Solid-State NMR-Driven Crystal Structure Prediction of Molecular Crystals: The Case of Mebendazole. Chemistry 2021; 28:e202103589. [PMID: 34962330 DOI: 10.1002/chem.202103589] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2021] [Indexed: 11/06/2022]
Abstract
Among all possible NMR crystallography approaches for crystal-structure determination, crystal structure prediction - NMR crystallography (CSP-NMRX) has recently turned out to be a powerful method. In the latter, the original procedure exploited solid-state NMR (SSNMR) information during the final steps of the prediction. In particular, it used the comparison of computed and experimental chemical shifts for the selection of the correct crystal packing. Still, the prediction procedure, generally carried out with DFT methods, may require important computational resources and be quite time-consuming, especially if there are no available constraints to use at the initial stage. Herein, the successful application of this combined prediction method, which exploits NMR information also in the input step to reduce the search space of the predictive algorithm, is presented. Herein, this method was applied on mebendazole, which is characterized by desmotropism. The use of SSNMR data as constraints for the selection of the right tautomer and the determination of the number of independent molecules in the unit cell led to a considerably faster process, reducing the number of calculations to be performed. In this way, the crystal packing was successfully predicted for the three known phases of mebendazole. To evaluate the quality of the predicted structures, these were compared to the experimental ones. The crystal structure of phase B of mebendazole, in particular, was determined de novo by powder diffraction and is presented for the first time in this paper.
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Affiliation(s)
- Federica Bravetti
- Department of Chemistry, Università degli Studi di Torino, via Pietro Giuria 7, 10125, Torino, Italy
| | - Simone Bordignon
- Department of Chemistry, Università degli Studi di Torino, via Pietro Giuria 7, 10125, Torino, Italy
| | - Edith Alig
- Institute of Inorganic and Analytical Chemistry, Goethe University, Max-von-Laue-Strasse 7, 60438, Frankfurt am Main, Germany
| | - Daniel Eisenbeil
- Institute of Inorganic and Analytical Chemistry, Goethe University, Max-von-Laue-Strasse 7, 60438, Frankfurt am Main, Germany
| | - Lothar Fink
- Institute of Inorganic and Analytical Chemistry, Goethe University, Max-von-Laue-Strasse 7, 60438, Frankfurt am Main, Germany
| | - Carlo Nervi
- Department of Chemistry, Università degli Studi di Torino, via Pietro Giuria 7, 10125, Torino, Italy
| | - Roberto Gobetto
- Department of Chemistry, Università degli Studi di Torino, via Pietro Giuria 7, 10125, Torino, Italy
| | - Martin U Schmidt
- Institute of Inorganic and Analytical Chemistry, Goethe University, Max-von-Laue-Strasse 7, 60438, Frankfurt am Main, Germany
| | - Michele R Chierotti
- Department of Chemistry, Università degli Studi di Torino, via Pietro Giuria 7, 10125, Torino, Italy
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Samanta S, Raval P, Manjunatha Reddy GN, Chaudhuri D. Cooperative Self-Assembly Driven by Multiple Noncovalent Interactions: Investigating Molecular Origin and Reassessing Characterization. ACS CENTRAL SCIENCE 2021; 7:1391-1399. [PMID: 34471682 PMCID: PMC8393228 DOI: 10.1021/acscentsci.1c00604] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/19/2021] [Indexed: 05/20/2023]
Abstract
Cooperative interactions play a pivotal role in programmable supramolecular assembly. Emerging from a complex interplay of multiple noncovalent interactions, achieving cooperativity has largely relied on empirical knowledge. Its development as a rational design tool in molecular self-assembly requires a detailed characterization of the underlying interactions, which has hitherto been a challenge for assemblies that lack long-range order. We employ extensive one- and two-dimensional magic-angle-spinning (MAS) solid-state NMR spectroscopy to elucidate key structure-directing interactions in cooperatively bound aggregates of a perylene bisimide (PBI) chromophore. Analysis of 1H-13C cross-polarization heteronuclear correlation (CP-HETCOR) and 1H-1H double-quantum single-quantum (DQ-SQ) correlation spectra allow the identification of through-space 1H···13C and 1H···1H proximities in the assembled state and reveals the nature of molecular organization in the solid aggregates. Emergence of cooperativity from the synergistic interaction between a stronger π-stacking and a weaker interstack hydrogen-bonding is elucidated. Finally, using a combination of optical absorption, circular dichroism, and high-resolution MAS NMR spectroscopy based titration experiments, we investigate the anomalous solvent-induced disassembly of aggregates. Our results highlight the disparity between two well-established approaches of characterizing cooperativity, using thermal and good solvent-induced disassembly. The anomaly is explained by elucidating the difference between two disassembly pathways.
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Affiliation(s)
- Samaresh Samanta
- Department
of Chemical Sciences, Indian Institute of
Science Education and Research (IISER) Kolkata, Mohanpur 741246, India
| | - Parth Raval
- Univ.
Lille, CNRS, Centrale Lille Institut, Univ. Artois, UMR 8181, Unité
de Catalyse et Chimie du Solide, F-59000 Lille, France
| | - G. N. Manjunatha Reddy
- Univ.
Lille, CNRS, Centrale Lille Institut, Univ. Artois, UMR 8181, Unité
de Catalyse et Chimie du Solide, F-59000 Lille, France
| | - Debangshu Chaudhuri
- Department
of Chemical Sciences, Indian Institute of
Science Education and Research (IISER) Kolkata, Mohanpur 741246, India
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11
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Pieraccini S, Campitiello M, Carducci F, Davis JT, Mariani P, Masiero S. Playing supramolecular dominoes with light: building and breaking a photoreversible G-quadruplex made from guanosine, boric acid and an azobenzene. Org Biomol Chem 2020; 17:2759-2769. [PMID: 30785179 DOI: 10.1039/c9ob00193j] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Addition of azobenzene-derivative 1 in its E configuration to an aqueous solution containing various guanosine borate esters induces a helical G-quartet based self-organization, stabilized by intercalation of the dye. The process is driven, in a domino fashion, by the initial host-guest interaction between the dye and a specific guanosine borate diester, whose structure can be thus assigned. This inclusion complex templates the formation of G-quartets. The quartets, in turn, pile up to form a supramolecular G-quadruplex structure, in which other G species present in solution are progressively included. The G-quadruplex can be reversibly broken and reformed by photoisomerization of the dye. This hierarchical and photosensitive self-assembly is unprecedented for simple guanosine derivatives.
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Affiliation(s)
- Silvia Pieraccini
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, v. S. Giacomo, 11-40126 Bologna, Italy.
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12
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Gonnelli A, Pieraccini S, Baldassarri EJ, Funari S, Masiero S, Ortore MG, Mariani P. Metallo-responsive self-assembly of lipophilic guanines in hydrocarbon solvents: a systematic SAXS structural characterization. NANOSCALE 2020; 12:1022-1031. [PMID: 31845695 DOI: 10.1039/c9nr08556d] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Lipophilic guanines (LipoGs) in aprotic solvents undergo different self-assembly processes based on different H-bonded motifs. Cylindrical nanotubes made by π-π stacked guanine tetramers (G-quadruplexes) and flat, tape-like aggregates (G-ribbons) have been observed depending on the presence of alkali metal ions. To obtain information on the structural properties and stability of these LipoG aggregates, Small-Angle X-ray Scattering (SAXS) experiments have been performed in dodecane, both in the presence and in the absence of potassium ions. As a result, the occurrence of the two different metallo-responsive architectures (nanoribbons or columnar nanotubes) was confirmed and we reported here for the first time a systematic study on the dependence of the aggregate properties on composition, temperature and molecular unit structure. Even if dodecane was selected to favour LipoG solubility, a strong tendency to self-organize into ordered lyotropic phases was indeed detected.
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Affiliation(s)
- Adriano Gonnelli
- Dipartimento di Scienze della Vita e dell'Ambiente, Biophysics Research Group, Università Politecnica delle Marche, Via Brecce Bianche, 60131 Ancona, Italy.
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13
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Stefan L, Monchaud D. Applications of guanine quartets in nanotechnology and chemical biology. Nat Rev Chem 2019. [DOI: 10.1038/s41570-019-0132-0] [Citation(s) in RCA: 60] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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14
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Farahani AD, Martin AD, Iranmanesh H, Bhadbhade MM, Beves JE, Thordarson P. Gel- and Solid-State-Structure of Dialanine and Diphenylalanine Amphiphiles: Importance of C⋅⋅⋅H Interactions in Gelation. Chemphyschem 2019; 20:972-983. [PMID: 30784156 DOI: 10.1002/cphc.201801104] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2019] [Revised: 02/13/2019] [Indexed: 12/26/2022]
Abstract
To investigate the role of the capping group in the solution and solid-state self-assembly of short peptide amphiphiles, dialanine and diphenylalanine have been linked via the N-terminus to a benzene (phenyl) and 3-naphthyl capping groups using three different methylene linkers; (CH2 )n , n=0-4 for the benezene and 0, 1 and 2 for the naphthalene capping group. Atomic force microscopy (AFM), oscillatory rheology, circular dichroism (CD), and IR analysis have been employed to understand the properties of these peptide-based hydrogels. Several X-ray structures of these short peptide gelators give useful conformational information regarding packing. A comparison of these solid state structures with their gel state properties yielded greater insights into the process of self-assembly in short peptide gelators, particularly in terms of the important role of C⋅⋅⋅H interactions appear to play in determining if a short aromatic peptide does form a gel or not.
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Affiliation(s)
- Abbas D Farahani
- School of Chemistry, University of New South Wales, Sydney, NSW 2052, Australia.,The Australian Centre for Nanomedicine and the ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, University of New South Wales, Sydney, NSW 2052, Australia
| | - Adam D Martin
- School of Chemistry, University of New South Wales, Sydney, NSW 2052, Australia.,The Australian Centre for Nanomedicine and the ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, University of New South Wales, Sydney, NSW 2052, Australia
| | - Hasti Iranmanesh
- School of Chemistry, University of New South Wales, Sydney, NSW 2052, Australia
| | - Mohan M Bhadbhade
- Mark Wainwright Analytical Centre, University of New South Wales, Sydney, NSW 2052, Australia
| | - Jonathon E Beves
- School of Chemistry, University of New South Wales, Sydney, NSW 2052, Australia
| | - Pall Thordarson
- School of Chemistry, University of New South Wales, Sydney, NSW 2052, Australia.,The Australian Centre for Nanomedicine and the ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, University of New South Wales, Sydney, NSW 2052, Australia
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15
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Xiao Q, Song F, Nie WC, Wang XL, Wang YZ. Self-complementary hydrogen-bond interactions of guanosine: a hub for constructing supra-amphiphilic polymers with controlled molecular structure and aggregate morphology. SOFT MATTER 2018; 15:102-108. [PMID: 30500047 DOI: 10.1039/c8sm02172d] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
A supra-amphiphilic polymer (SAP) with controlled molecular structures is constructed, in this work, via self-complementary hydrogen bonding of guanosine groups between a hydrophilic block, poly(N-isopropylacrylamide), and a hydrophobic block, poly(ε-caprolactone). By simply changing the mixing ratio of the guanosine-capped hydrophilic and hydrophobic blocks, a series of SAPs with tailored nanostructures are constructed, which can further self-assemble into different nano-aggregates in solution, including spheres, vesicles and large vesicle micelles. The thermo-induced phase transition of the hydrophilic block induces the fusion and aggregation of the nanoparticles into irregular particles upon heating, which further transform to large compound vesicles after cooling.
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Affiliation(s)
- Qian Xiao
- Center for Degradable and Flame-Retardant Polymeric Materials, College of Chemistry, State Key Laboratory of Polymer Materials Engineering, National Engineering Laboratory of Eco-Friendly Polymeric Materials (Sichuan), Sichuan University, Chengdu 610064, China.
| | - Fei Song
- Center for Degradable and Flame-Retardant Polymeric Materials, College of Chemistry, State Key Laboratory of Polymer Materials Engineering, National Engineering Laboratory of Eco-Friendly Polymeric Materials (Sichuan), Sichuan University, Chengdu 610064, China.
| | - Wu-Cheng Nie
- Center for Degradable and Flame-Retardant Polymeric Materials, College of Chemistry, State Key Laboratory of Polymer Materials Engineering, National Engineering Laboratory of Eco-Friendly Polymeric Materials (Sichuan), Sichuan University, Chengdu 610064, China.
| | - Xiu-Li Wang
- Center for Degradable and Flame-Retardant Polymeric Materials, College of Chemistry, State Key Laboratory of Polymer Materials Engineering, National Engineering Laboratory of Eco-Friendly Polymeric Materials (Sichuan), Sichuan University, Chengdu 610064, China.
| | - Yu-Zhong Wang
- Center for Degradable and Flame-Retardant Polymeric Materials, College of Chemistry, State Key Laboratory of Polymer Materials Engineering, National Engineering Laboratory of Eco-Friendly Polymeric Materials (Sichuan), Sichuan University, Chengdu 610064, China.
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16
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Hudson BC, Battigelli A, Connolly MD, Edison J, Spencer RK, Whitelam S, Zuckermann RN, Paravastu AK. Evidence for cis Amide Bonds in Peptoid Nanosheets. J Phys Chem Lett 2018; 9:2574-2578. [PMID: 29658722 DOI: 10.1021/acs.jpclett.8b01040] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Peptoid nanosheets are supramolecular protein-mimetic materials that form from amphiphilic polypeptoids with aromatic and ionic side chains. Nanosheets have been studied at the nanometer scale, but the molecular structure has been difficult to probe. We report the use of 13C-13C dipolar recoupling solid-state NMR measurements to reveal the configuration of backbone amide bonds selected by 13C isotopic labeling of adjacent α-carbons. Measurements on the same molecules in the amorphous state and in nanosheets revealed that amide bonds in the center of the amino block of peptoid (NaeNpe)7-(NceNpe)7 (B28) favor the trans configuration in the amorphous state and the cis configuration in the nanosheet. This unexpected result contrasts with previous NMR and theoretical studies of short solvated peptoids. Furthermore, examination of the amide bond at the junction of the two charged blocks within B28 revealed a mixture of both cis and trans configurational states, consistent with the previously predicted brickwork-like intermolecular organization.
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Affiliation(s)
- Benjamin C Hudson
- Department of Chemical and Biomolecular Engineering , Georgia Institute of Technology , Atlanta , Georgia 30332-0100 , United States
| | - Alessia Battigelli
- Molecular Foundry , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States
| | - Michael D Connolly
- Molecular Foundry , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States
| | - John Edison
- Molecular Foundry , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States
| | - Ryan K Spencer
- Molecular Foundry , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States
| | - Stephen Whitelam
- Molecular Foundry , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States
| | - Ronald N Zuckermann
- Molecular Foundry , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States
| | - Anant K Paravastu
- Department of Chemical and Biomolecular Engineering , Georgia Institute of Technology , Atlanta , Georgia 30332-0100 , United States
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17
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Wang L, Uribe-Romo FJ, Mueller LJ, Harper JK. Predicting anisotropic thermal displacements for hydrogens from solid-state NMR: a study on hydrogen bonding in polymorphs of palmitic acid. Phys Chem Chem Phys 2018; 20:8475-8487. [PMID: 29431770 PMCID: PMC5878182 DOI: 10.1039/c7cp06724k] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
The hydrogen-bonding environments at the COOH moiety in eight polycrystalline polymorphs of palmitic acid are explored using solid-state NMR. Although most phases have no previously reported crystal structure, measured 13C chemical shift tensors for COOH moieties, combined with DFT modeling establish that all phases crystallize with a cyclic dimer (R22(8)) hydrogen bonding arrangement. Phases A2, Bm and Em have localized OH hydrogens while phase C has a dynamically disordered OH hydrogen. The phase designated As is a mix of five forms, including 27.4% of Bm and four novel phases not fully characterized here due to insufficient sample mass. For phases A2, Bm, Em, and C the anisotropic uncertainties in the COOH hydrogen atom positions are established using a Monte Carlo sampling scheme. Sampled points are retained or rejected at the ±1σ level based upon agreement of DFT computed 13COOH tensors with experimental values. The collection of retained hydrogen positions bear a remarkable resemblance to the anisotropic displacement parameters (i.e. thermal ellipsoids) from diffraction studies. We posit that this similarity is no mere coincidence and that the two are fundamentally related. The volumes of NMR-derived anisotropic displacement ellipsoids for phases with localized OH hydrogens are 4.1 times smaller than those derived from single crystal X-ray diffraction and 1.8 times smaller than the volume of benchmark single crystal neutron diffraction values.
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Affiliation(s)
- Luther Wang
- Department of Chemistry, University of Central Florida, 4111 Libra Drive, Orlando, FL 32816, USA.
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18
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Advanced solid-state NMR methods for characterising structure and self-assembly in supramolecular chemistry, polymers and hydrogels. Curr Opin Colloid Interface Sci 2018. [DOI: 10.1016/j.cocis.2018.02.005] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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19
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Hu Y, Xie D, Wu Y, Lin N, Song A, Hao J. Hydrogels Based on Ag + -Modulated Assembly of 5'-Adenosine Monophosphate for Enriching Biomolecules. Chemistry 2017; 23:15721-15728. [PMID: 28833801 DOI: 10.1002/chem.201703180] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2017] [Indexed: 12/18/2022]
Abstract
Supramolecular hydrogels obtained by combining 5'-adenosine monophosphate (AMP) with Ag+ were fabricated in this work. Their gelation capability was enhanced by increasing the concentration of Ag+ or decreasing the pH. The gels are very sensitive to light, which endows them with potential applications as visible-light photosensitive materials. Coordination between the nucleobase of AMP and Ag+ , as well as π-π stacking of nucleobases, are considered to be the main driving forces for self-assembly. The hydrogels successfully achieved the encapsulation and enrichment of biomolecules. Hydrogen bonding between the amino group of guest molecules and silver nanoparticles along the nanofibers drives the enrichment and is considered to be a crucial interaction.
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Affiliation(s)
- Yuanyuan Hu
- Key Laboratory of Colloid and Interface Chemistry, & Key Laboratory of Special Aggregated Materials, Shandong University, Ministry of Education, Jinan, 250100, P.R. China
| | - Dong Xie
- Key Laboratory of Colloid and Interface Chemistry, & Key Laboratory of Special Aggregated Materials, Shandong University, Ministry of Education, Jinan, 250100, P.R. China
| | - Yang Wu
- Key Laboratory of Colloid and Interface Chemistry, & Key Laboratory of Special Aggregated Materials, Shandong University, Ministry of Education, Jinan, 250100, P.R. China
| | - Nangui Lin
- Key Laboratory of Colloid and Interface Chemistry, & Key Laboratory of Special Aggregated Materials, Shandong University, Ministry of Education, Jinan, 250100, P.R. China
| | - Aixin Song
- Key Laboratory of Colloid and Interface Chemistry, & Key Laboratory of Special Aggregated Materials, Shandong University, Ministry of Education, Jinan, 250100, P.R. China
| | - Jingcheng Hao
- Key Laboratory of Colloid and Interface Chemistry, & Key Laboratory of Special Aggregated Materials, Shandong University, Ministry of Education, Jinan, 250100, P.R. China
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20
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Reddy GNM, Huqi A, Iuga D, Sakurai S, Marsh A, Davis JT, Masiero S, Brown SP. Co-existence of Distinct Supramolecular Assemblies in Solution and in the Solid State. Chemistry 2016; 23:2315-2322. [PMID: 27897351 PMCID: PMC5396329 DOI: 10.1002/chem.201604832] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2016] [Indexed: 11/24/2022]
Abstract
The formation of distinct supramolecular assemblies, including a metastable species, is revealed for a lipophilic guanosine (G) derivative in solution and in the solid state. Structurally different G‐quartet‐based assemblies are formed in chloroform depending on the nature of the cation, anion and the salt concentration, as characterized by circular dichroism and time course diffusion‐ordered NMR spectroscopy data. Intriguingly, even the presence of potassium ions that stabilize G‐quartets in chloroform was insufficient to exclusively retain such assemblies in the solid state, leading to the formation of mixed quartet and ribbon‐like assemblies as revealed by fast magic‐angle spinning (MAS) NMR spectroscopy. Distinct N−H⋅⋅⋅N and N−H⋅⋅⋅O intermolecular hydrogen bonding interactions drive quartet and ribbon‐like self‐assembly resulting in markedly different 2D 1H solid‐state NMR spectra, thus facilitating a direct identification of mixed assemblies. A dissolution NMR experiment confirmed that the quartet and ribbon interconversion is reversible–further demonstrating the changes that occur in the self‐assembly process of a lipophilic nucleoside upon a solid‐state to solution‐state transition and vice versa. A systematic study for complexation with different cations (K+, Sr2+) and anions (picrate, ethanoate and iodide) emphasizes that the existence of a stable solution or solid‐state structure may not reflect the stability of the same supramolecular entity in another phase.
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Affiliation(s)
- G N Manjunatha Reddy
- Department of Physics and Department of Chemistry, University of, Warwick, Coventry, CV4 7AL, UK
| | - Aida Huqi
- Dipartimento di Chimica "Giacomo Ciamician", Alma Mater Studiorum, Università di Bologna, 40126, Bologna, Italy
| | - Dinu Iuga
- Department of Physics and Department of Chemistry, University of, Warwick, Coventry, CV4 7AL, UK
| | - Satoshi Sakurai
- JEOL (UK), Silver Court, Watchmead, Welwyn Garden City, AL7 1LT, UK
| | - Andrew Marsh
- Department of Physics and Department of Chemistry, University of, Warwick, Coventry, CV4 7AL, UK
| | - Jeffery T Davis
- Department of Chemistry and Biochemistry, University of Maryland, College Park, MD, 20742, USA
| | - Stefano Masiero
- Dipartimento di Chimica "Giacomo Ciamician", Alma Mater Studiorum, Università di Bologna, 40126, Bologna, Italy
| | - Steven P Brown
- Department of Physics and Department of Chemistry, University of, Warwick, Coventry, CV4 7AL, UK
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