1
|
Schlattmann D, Weber B, Wyszynski L, Schönhoff M, Haas H. Molecular localization and exchange kinetics in pharmaceutical liposome and mRNA lipoplex nanoparticle products determined by small angle X-ray scattering and pulsed field gradient NMR diffusion measurements. Eur J Pharm Biopharm 2024; 201:114380. [PMID: 38960290 DOI: 10.1016/j.ejpb.2024.114380] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2024] [Revised: 05/29/2024] [Accepted: 06/20/2024] [Indexed: 07/05/2024]
Abstract
We have used pulsed field gradient (PFG)-NMR diffusion experiments, also known as DOSY, in combination with small angle X-ray scattering measurements to investigate structure and molecular exchange dynamics between pharmaceutical lipid nanoparticles and the bulk phase. Using liposomes and lipoplexes formed after complexation of the liposomes with messenger mRNA as test systems, information on dynamics of encapsulated water molecules, lipids and excipients was obtained. The encapsulated fraction, having a diffusivity similar to that of the liposomes, could be clearly identified and quantified by the NMR diffusion measurements. The unilamellar liposome membranes allowed a fast exchange of water molecules, while sucrose, used as an osmolyte and model solute, showed very slow exchange. Upon interactions with mRNA a topological transition from a vesicular to a lamellar organization took place, where the mRNA was inserted in repeating lipid bilayer stacks. In the lipoplexes, a small fraction of tightly bound water molecules was present, with a diffusivity that was influenced by the additional presence of sucrose. This extended information on dynamic coherencies inside pharmaceutical nanoparticle products, provided by the combined application of SAXS and PFG-NMR diffusion measurements, can be valuable for evaluation of quality and comparability of nanoscaled pharmaceuticals.
Collapse
Affiliation(s)
- Daniel Schlattmann
- Institute of Physical Chemistry, University of Münster, Corrensstr. 28/30, 48149 Münster, Germany
| | | | - Leonard Wyszynski
- Institute of Physical Chemistry, University of Münster, Corrensstr. 28/30, 48149 Münster, Germany
| | - Monika Schönhoff
- Institute of Physical Chemistry, University of Münster, Corrensstr. 28/30, 48149 Münster, Germany.
| | - Heinrich Haas
- BioNTech SE. Mainz, Germany; Department of Biopharmaceutics and Pharmaceutical Technology, Johannes Gutenberg-University, Mainz, Germany.
| |
Collapse
|
2
|
Wolff N, Beuck C, Schaller T, Epple M. Possibilities and limitations of solution-state NMR spectroscopy to analyze the ligand shell of ultrasmall metal nanoparticles. NANOSCALE ADVANCES 2024; 6:3285-3298. [PMID: 38933863 PMCID: PMC11197423 DOI: 10.1039/d4na00139g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/14/2024] [Accepted: 05/24/2024] [Indexed: 06/28/2024]
Abstract
Ultrasmall nanoparticles have a diameter between 1 and 3 nm at the border between nanoparticles and large molecules. Usually, their core consists of a metal, and the shell of a capping ligand with sulfur or phosphorus as binding atoms. While the core structure can be probed by electron microscopy, electron and powder diffraction, and single-crystal structure analysis for atom-sharp clusters, it is more difficult to analyze the ligand shell. In contrast to larger nanoparticles, ultrasmall nanoparticles cause only a moderate distortion of the NMR signal, making NMR spectroscopy a qualitative as well as a quantitative probe to assess the nature of the ligand shell. The application of isotope-labelled ligands and of two-dimensional NMR techniques can give deeper insight into ligand-nanoparticle interactions. Applications of one- and two-dimensional NMR spectroscopy to analyze ultrasmall nanoparticles are presented with suitable examples, including a critical discussion of the limitations of NMR spectroscopy on nanoparticles.
Collapse
Affiliation(s)
- Natalie Wolff
- Inorganic Chemistry, Centre for Nanointegration Duisburg-Essen (CeNIDE), University of Duisburg-Essen 45117 Essen Germany
| | - Christine Beuck
- Structural and Medicinal Biochemistry, Centre for Medical Biotechnology (ZMB), University of Duisburg-Essen 45117 Essen Germany
| | - Torsten Schaller
- Organic Chemistry, University of Duisburg-Essen 45117 Essen Germany
| | - Matthias Epple
- Inorganic Chemistry, Centre for Nanointegration Duisburg-Essen (CeNIDE), University of Duisburg-Essen 45117 Essen Germany
| |
Collapse
|
3
|
Spiaggia F, Uccello Barretta G, Iuliano A, Baldassari C, Aiello F, Balzano F. A Squaramide-Based Organocatalyst as a Novel Versatile Chiral Solvating Agent for Carboxylic Acids. Molecules 2024; 29:2389. [PMID: 38792248 PMCID: PMC11123912 DOI: 10.3390/molecules29102389] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2024] [Revised: 05/03/2024] [Accepted: 05/15/2024] [Indexed: 05/26/2024] Open
Abstract
A squaramide-based organocatalyst for asymmetric Michael reactions has been tested as a chiral solvating agent (CSA) for 26 carboxylic acids and camphorsulfonic acid, encompassing amino acid derivatives, mandelic acid, as well as some of its analogs, propionic acids like profens (ketoprofen and ibuprofen), butanoic acids and others. In many cases remarkably high enantiodifferentiations at 1H, 13C and 19F nuclei were observed. The interaction likely involves a proton transfer from the acidic substrates to the tertiary amine sites of the organocatalyst, thus allowing for pre-solubilization of the organocatalyst (when a chloroform solution of the substrate is employed) or the simultaneous solubilization of both the catalyst and the substrate. DOSY experiments were employed to evaluate whether the catalyst-substrate ionic adduct was a tight one or not. ROESY experiments were employed to investigate the role of the squaramide unit in the adduct formation. A mechanism of interaction was proposed in accordance with the literature data.
Collapse
Affiliation(s)
- Fabio Spiaggia
- Department of Chemistry and Industrial Chemistry, University of Pisa, Via G. Moruzzi 13, 56124 Pisa, Italy; (A.I.); (C.B.); (F.B.)
| | - Gloria Uccello Barretta
- Department of Chemistry and Industrial Chemistry, University of Pisa, Via G. Moruzzi 13, 56124 Pisa, Italy; (A.I.); (C.B.); (F.B.)
| | - Anna Iuliano
- Department of Chemistry and Industrial Chemistry, University of Pisa, Via G. Moruzzi 13, 56124 Pisa, Italy; (A.I.); (C.B.); (F.B.)
| | - Carlo Baldassari
- Department of Chemistry and Industrial Chemistry, University of Pisa, Via G. Moruzzi 13, 56124 Pisa, Italy; (A.I.); (C.B.); (F.B.)
| | - Federica Aiello
- National Research Council, Institute for Chemical and Physical Processes (CNR-IPCF), Via G. Moruzzi 1, 56124 Pisa, Italy;
| | - Federica Balzano
- Department of Chemistry and Industrial Chemistry, University of Pisa, Via G. Moruzzi 13, 56124 Pisa, Italy; (A.I.); (C.B.); (F.B.)
| |
Collapse
|
4
|
Lu Z, Luciani L, Li S, Nesterov VN, Zuccaccia C, Macchioni A, Fripp JL, Zhang W, Omary MA, Galassi R. A Broadened Class of Donor-Acceptor Stacked Macrometallacyclic Adducts of Different Coinage Metals. Chemistry 2024:e202401576. [PMID: 38735852 DOI: 10.1002/chem.202401576] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2024] [Revised: 05/09/2024] [Accepted: 05/10/2024] [Indexed: 05/14/2024]
Abstract
A yet-outstanding supramolecular chemistry challenge is isolation of novel varieties of stacked complexes with finely-tuned donor-acceptor bonding and optoelectronic properties, as herein reported for binary adducts comprising two different cyclic trinuclear complexes (CTC@CTC'). Most previous attempts focused only on 1-2 factors among metal/ligand/substituent combinations, resulting in heterobimetallic complexes. Instead, here we show that, when all 3 factors are carefully considered, a broadened variety of CTC@CTC' stacked pairs with intuitively-enhanced intertrimer coordinate-covalent bonding strength and ligand-ligand/metal-ligand dispersion are attained (dM-M' 2.868(2) Å; ΔE>50 kcal/mol, an order of magnitude higher than aurophilic/metallophilic interactions). Significantly, CTC@CTC' pairs remain intact/strongly-bound even in solution (Keq 4.67×105 L/mol via NMR/UV-vis titrations), and the gas phase (mass spectrometry revealing molecular peaks for the entire CTC@CTC' units in sublimed samples), rather than simple co-crystal formation. Photo-/electro-luminescence studies unravel metal-centered phosphorescence useful for novel all metal-organic light-emitting diodes (MOLEDs) optoelectronic device concepts. This work manifests systematic design of supramolecular bonding and multi-faceted spectral properties of pure metal-organic macrometallacyclic donor/acceptor (inorganic/inorganic) stacks with remarkably-rich optoelectronic properties akin to well-established organic/organic and organic/inorganic analogues.
Collapse
Affiliation(s)
- Zhou Lu
- Department of Chemistry, University of North Texas, Denton, Texas, 76203, USA
| | - Lorenzo Luciani
- School of Science and Technology, Chemistry Division, University of Camerino, ChIP Via Madonna delle Carceri, 10, I-62032, Camerino, Italy
| | - Shan Li
- Department of Chemistry, University of North Texas, Denton, Texas, 76203, USA
| | - Vladimir N Nesterov
- Department of Chemistry, University of North Texas, Denton, Texas, 76203, USA
| | - Cristiano Zuccaccia
- Department of Chemistry, Biology and Biotechnology, University of Perugia and CIRCC, Via Elce di Sotto 8, I-06123, Perugia, Italy
| | - Alceo Macchioni
- Department of Chemistry, Biology and Biotechnology, University of Perugia and CIRCC, Via Elce di Sotto 8, I-06123, Perugia, Italy
| | - Jacob L Fripp
- Department of Chemistry, University of North Texas, Denton, Texas, 76203, USA
| | - Weijie Zhang
- Department of Chemistry, University of North Texas, Denton, Texas, 76203, USA
| | - Mohammad A Omary
- Department of Chemistry, University of North Texas, Denton, Texas, 76203, USA
| | - Rossana Galassi
- School of Science and Technology, Chemistry Division, University of Camerino, ChIP Via Madonna delle Carceri, 10, I-62032, Camerino, Italy
| |
Collapse
|
5
|
Groslambert L, Cornaton Y, Ditte M, Aubert E, Pale P, Tkatchenko A, Djukic JP, Mamane V. Affinity of Telluronium Chalcogen Bond Donors for Lewis Bases in Solution: A Critical Experimental-Theoretical Joint Study. Chemistry 2024; 30:e202302933. [PMID: 37970753 DOI: 10.1002/chem.202302933] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2023] [Revised: 11/15/2023] [Accepted: 11/15/2023] [Indexed: 11/17/2023]
Abstract
Telluronium salts [Ar2 MeTe]X were synthesized, and their Lewis acidic properties towards a number of Lewis bases were addressed in solution by physical and theoretical means. Structural X-ray diffraction analysis of 21 different salts revealed the electrophilicity of the Te centers in their interactions with anions. Telluroniums' propensity to form Lewis pairs was investigated with OPPh3 . Diffusion-ordered NMR spectroscopy suggested that telluroniums can bind up to three OPPh3 molecules. Isotherm titration calorimetry showed that the related heats of association in 1,2-dichloroethane depend on the electronic properties of the substituents of the aryl moiety and on the nature of the counterion. The enthalpies of first association of OPPh3 span -0.5 to -5 kcal mol-1 . Study of the affinity of telluroniums for OPPh3 by state-of-the-art DFT and ab-initio methods revealed the dominant Coulombic and dispersion interactions as well as an entropic effect favoring association in solution. Intermolecular orbital interactions between [Ar2 MeTe]+ cations and OPPh3 are deemed insufficient on their own to ensure the cohesion of [Ar2 MeTe ⋅ Bn ]+ complexes in solution (B=Lewis base). Comparison of Grimme's and Tkatchenko's DFT-D4/MBD-vdW thermodynamics of formation of higher [Ar2 MeTe ⋅ Bn ]+ complexes revealed significant molecular size-dependent divergence of the two methodologies, with MBD yielding better agreement with experiment.
Collapse
Affiliation(s)
- Loïc Groslambert
- LASYROC, UMR 7177 CNRS, University of Strasbourg, 1 Rue Blaise Pascal, F-67000, Strasbourg, France
| | - Yann Cornaton
- LCSOM, UMR 7177 CNRS, Université de Strasbourg, 4 rue Blaise Pascal, F-67000, Strasbourg, France
| | - Matej Ditte
- Department of Physics and Materials Science, University of Luxembourg, L-1511, Luxembourg City, Luxembourg
| | | | - Patrick Pale
- LASYROC, UMR 7177 CNRS, University of Strasbourg, 1 Rue Blaise Pascal, F-67000, Strasbourg, France
| | - Alexandre Tkatchenko
- Department of Physics and Materials Science, University of Luxembourg, L-1511, Luxembourg City, Luxembourg
| | - Jean-Pierre Djukic
- LCSOM, UMR 7177 CNRS, Université de Strasbourg, 4 rue Blaise Pascal, F-67000, Strasbourg, France
| | - Victor Mamane
- LASYROC, UMR 7177 CNRS, University of Strasbourg, 1 Rue Blaise Pascal, F-67000, Strasbourg, France
| |
Collapse
|
6
|
Sousa DA, Berberan-Santos MN, Prata JV. Are "Carbon Dots" Always Carbon Dots? Evidence for their Supramolecular Nature from Structural and Dynamic Studies in Solution and in the Pure Solid. Chemistry 2024; 30:e202302955. [PMID: 37943001 DOI: 10.1002/chem.202302955] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2023] [Revised: 11/06/2023] [Accepted: 11/08/2023] [Indexed: 11/10/2023]
Abstract
A model for the morphology (size, shape, and crystallinity) of carbon dots (CDs) in the solid state consistent with the observed photoluminescence in solution is proposed herein. Overwhelming evidence has been collected that links the data coming from solid-state analysis (high-resolution transmission electron microscopy (HRTEM), atomic force microscopy (AFM), and matrix-assisted laser desorption/ionization (MALDI) mass spectrometry (MS)) to that of solution (pulsed-field gradient (PFG)-NMR spectroscopy, time-resolved fluorescence anisotropy (TRFA), and steady-state/time-resolved fluorescence), allowing the establishment of an overall structural model for CDs. According to this model, the so-called carbon dots, observed under HRTEM imaging, are in fact supramolecular organized structures dynamically assembled from small to medium-sized molecular species when the solvent is removed to give the solid form. In this way, the imaged nanoparticles (TEM/AFM) are not covalently bound entities formed during the synthetic process, but instead supramolecular entities formed by noncovalent interactions. These particles, if at all present in solution, have the form of loose associations of relatively small molecules. This study was conducted on CDs obtained from the hydrothermal carbonization (HTC) of a biomass waste (olive wet pomace).
Collapse
Affiliation(s)
- Diogo A Sousa
- Department of Chemical Engineering Instituto Superior de Engenharia de Lisboa, Instituto Politécnico de Lisboa, 1959-007, Lisbon, Portugal
- BSIRG-iBB-Institute for Bioengineering and Biosciences, and Associate Laboratory i4HB - Institute for Health and Bioeconomy Instituto Superior Técnico, Universidade de Lisboa, 1049-001, Lisbon, Portugal
| | - Mário N Berberan-Santos
- BSIRG-iBB-Institute for Bioengineering and Biosciences, and Associate Laboratory i4HB - Institute for Health and Bioeconomy Instituto Superior Técnico, Universidade de Lisboa, 1049-001, Lisbon, Portugal
| | - José V Prata
- Department of Chemical Engineering Instituto Superior de Engenharia de Lisboa, Instituto Politécnico de Lisboa, 1959-007, Lisbon, Portugal
- CQ-VR-Centro de Química-Vila Real, Universidade de Trás-os-Montes e Alto Douro, 5001-801, Vila Real, Portugal
| |
Collapse
|
7
|
Huang Z, Bi T, Jiang H, Liu H. Review on NMR as a tool to analyse natural products extract directly: Molecular structure elucidation and biological activity analysis. PHYTOCHEMICAL ANALYSIS : PCA 2024; 35:5-16. [PMID: 37789666 DOI: 10.1002/pca.3292] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/28/2023] [Revised: 08/30/2023] [Accepted: 09/19/2023] [Indexed: 10/05/2023]
Abstract
INTRODUCTION Natural products, the small organic molecules produced by plants, microbes and invertebrates, often present in the form of a mixture, this leads to the structural characterisation of natural extracts often requiring time-consuming multistep purification procedures. Nuclear magnetic resonance (NMR) technology is traditionally utilised as a tool for the structural elucidation of pure compounds. Contemporarily, an up-to-date trend in the application of NMR in natural product research is shifting to the direct NMR analysis of crude mixtures, to obtain molecular structure and biological activity information without performing cumbersome separation. OBJECTIVE To review works of literature on the evolution, principle and progress of NMR technologies for analysing mixtures, we focus on the successful application of NMR technologies in direct analysis of natural product extracts. METHODOLOGY Based on our research experience, academic tracking and extensive literature search, which involved, but not limited to, the use of various databases, like Web of Knowledge and PubMed. The keywords used, in various combinations, to retrieve recent literature on the successful application of NMR technologies to sheer natural product extracts, and excluded artificially natural product mixture and biofluid. RESULTS NMR technologies for direct natural extracts analysis, including two-dimensional J-resolved spectroscopy (2D-JRES), pure shift NMR, diffusion-ordered NMR spectroscopy (DOSY), statistical correlation spectroscopy (STOCSY), concentration-ordered NMR spectroscopy (CORDY), saturation transfer difference (STD) and water-ligand observed via gradient spectroscopy (WaterLOGSY) were illustrated. CONCLUSIONS By these methods, molecular structure and biological activity information will be directly obtained from NMR analysis of natural products extract, aiming to save experimental time and expenses.
Collapse
Affiliation(s)
- Zhouman Huang
- College of Life Sciences, Wuchang University of Technology, Wuhan, China
| | - Tian Bi
- College of Life Sciences, Wuchang University of Technology, Wuhan, China
| | - Haipeng Jiang
- College of Life Sciences, Wuchang University of Technology, Wuhan, China
| | - Huwei Liu
- College of Life Sciences, Wuchang University of Technology, Wuhan, China
| |
Collapse
|
8
|
Graham TR, Wei Y, Walter ED, Nienhuis ET, Chun J, Schenter GK, Rosso KM, Pearce CI, Clark AE. Tracking nitrite's deviation from Stokes-Einstein predictions with pulsed field gradient 15N NMR spectroscopy. Chem Commun (Camb) 2023; 59:14407-14410. [PMID: 37975198 DOI: 10.1039/d3cc04168a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2023]
Abstract
Predicting the behavior of oxyanions in radioactive waste stored at the Department of Energy legacy nuclear sites requires the development of novel analytical methods. This work demonstrates 15N pulsed field gradient nuclear magnetic resonance spectroscopy to quantify the diffusivity of nitrite. Experimental results, supported by molecular dynamics simulations, indicate that the diffusivity of free hydrated nitrite exceeds that of free hydrated sodium despite the greater hydrodynamic radius of nitrite. Investigations are underway to understand how the compositional and dynamical heterogeneities of the ion networks at high concentrations affect rheological and transport properties.
Collapse
Affiliation(s)
- Trent R Graham
- Pacific Northwest National Laboratory, Richland, Washington 99354, USA.
| | - Yihui Wei
- Department of Chemistry, University of Utah, Salt Lake City, Utah, 84112, USA
| | - Eric D Walter
- Pacific Northwest National Laboratory, Richland, Washington 99354, USA.
| | - Emily T Nienhuis
- Pacific Northwest National Laboratory, Richland, Washington 99354, USA.
| | - Jaehun Chun
- Pacific Northwest National Laboratory, Richland, Washington 99354, USA.
| | | | - Kevin M Rosso
- Pacific Northwest National Laboratory, Richland, Washington 99354, USA.
| | - Carolyn I Pearce
- Pacific Northwest National Laboratory, Richland, Washington 99354, USA.
- Department of Crop and Soil Sciences, Washington State University, Pullman, Washington 99164, USA
| | - Aurora E Clark
- Department of Chemistry, University of Utah, Salt Lake City, Utah, 84112, USA
| |
Collapse
|
9
|
Olowookere FV, Turner CH. Predicting Gaseous Solute Diffusion in Viscous Multivalent Ionic Liquid Solvents. J Phys Chem B 2023; 127:9144-9154. [PMID: 37831616 DOI: 10.1021/acs.jpcb.3c03858] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/15/2023]
Abstract
Calculating solute diffusion in dense, viscous solvents can be particularly challenging in molecular dynamics simulations due to the long time scales involved. Here, a new scaling approach is developed for predicting solute diffusion based on analyses of CO2 and SO2 diffusion in two different multivalent ionic liquid solvents. Various scaling approaches are initially evaluated, including single and separate thermostats for the solute and solvent, as well as the application of the Arrhenius relationship and the Speedy-Angell power law. A very strong logarithmic correlation is established between the solvent-accessible surface area and solute diffusion. This relationship, reflecting Danckwerts' surface renewal theory and the Vrentas-Duda free volume model, presents a valuable method for estimating diffusion behavior from short simulation trajectories at elevated temperatures. The approach may be beneficial for enhancing predictive modeling in similar challenging systems and should be more broadly evaluated.
Collapse
Affiliation(s)
- Feranmi V Olowookere
- Department of Chemical and Biological Engineering, The University of Alabama, Tuscaloosa, Alabama 35487-0203, United States
| | - C Heath Turner
- Department of Chemical and Biological Engineering, The University of Alabama, Tuscaloosa, Alabama 35487-0203, United States
| |
Collapse
|
10
|
Yuan M, Xu W, Yang Y, Li S, Yang H, Gao J, Jiang H, Yang M. Diffusion-Ordered Spectroscopy (DOSY) as a Powerful NMR Method to Investigate Molecular Mobilities and Intermolecular Interactions in Complex Oil Mixtures. Chemphyschem 2023:e202300587. [PMID: 37880197 DOI: 10.1002/cphc.202300587] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2023] [Revised: 10/23/2023] [Accepted: 10/23/2023] [Indexed: 10/27/2023]
Abstract
Studying the characteristics and molecular mechanisms of liquid self-diffusion coefficient and viscosity changes is of great significance for, e. g., chemical and petroleum processing. As examples of highly complex liquid,an asphaltene-free high-acid and high-viscosity crude oil and its extracted fractions were studied by comparing their 1 H DOSY diffusion maps. The crude oil exhibited a polydisperse diffusion distribution, including multiple diffusion portions with diffusion coefficients much smaller than that of any single fraction in independent diffusion. The main mechanism that leads to the decreases in the diffusion coefficients of crude oil is attributed to diffusion resistance enhanced by Dynamical Molecular-Interaction Networks (DMINs), rather than by enlargement of the diffusion species caused by molecular aggregation. Constructed through the synergistic interactions of various polar molecules in crude oil, DMINs dynamically bind polar molecules, trap polarizable molecules, and spatially hinder the free motion of non-polar molecules. Overall, this reduces the mobility of all molecular species, as illustrated by the decreased diffusion coefficients. This study demonstrates that DOSY is a powerful NMR method to investigate molecular motion abilities also in complex mixtures. In addition, the insights in the influence of the interaction matrix on the molecular mobility also help to understand the contribution of "structural viscosity" to the viscosity of heavy oil.
Collapse
Affiliation(s)
- Meng Yuan
- Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Shandong Energy Institute, Qingdao, 266101, China
- Qingdao New Energy Shandong Laboratory, Qingdao, 266101, China
| | - Wenlong Xu
- Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Shandong Energy Institute, Qingdao, 266101, China
- Qingdao New Energy Shandong Laboratory, Qingdao, 266101, China
| | - Ying Yang
- Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Shandong Energy Institute, Qingdao, 266101, China
- Qingdao New Energy Shandong Laboratory, Qingdao, 266101, China
| | - Suying Li
- Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Shandong Energy Institute, Qingdao, 266101, China
- Qingdao New Energy Shandong Laboratory, Qingdao, 266101, China
| | - Haiyan Yang
- Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Shandong Energy Institute, Qingdao, 266101, China
- Qingdao New Energy Shandong Laboratory, Qingdao, 266101, China
| | - Jun Gao
- Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Shandong Energy Institute, Qingdao, 266101, China
- Qingdao New Energy Shandong Laboratory, Qingdao, 266101, China
| | - Heqing Jiang
- Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Shandong Energy Institute, Qingdao, 266101, China
- Qingdao New Energy Shandong Laboratory, Qingdao, 266101, China
| | - Menglong Yang
- Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Shandong Energy Institute, Qingdao, 266101, China
- Qingdao New Energy Shandong Laboratory, Qingdao, 266101, China
| |
Collapse
|
11
|
Zhang P, Cheng J, Lu Y, Zhang N, Wu X, Lin H, Li W, Wang J, Winnik MA, Gan Z, Hou Y. Hypersensitive MR angiography based on interlocking stratagem for diagnosis of cardiac-cerebral vascular diseases. Nat Commun 2023; 14:6149. [PMID: 37783733 PMCID: PMC10545789 DOI: 10.1038/s41467-023-41783-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2022] [Accepted: 09/11/2023] [Indexed: 10/04/2023] Open
Abstract
Magnetic resonance (MR) angiography is one of the main diagnostic approaches for cardiac-cerebral vascular diseases. Nevertheless, the non-contrast-enhanced MR angiography suffers from its intrinsic problems derived from the blood flow-dependency, while the clinical Gd-chelating contrast agents are limited by their rapid vascular extravasation. Herein, we report a hypersensitive MR angiography strategy based on interlocking stratagem of zwitterionic Gd-chelate contrast agents (PAA-Gd). The longitudinal molar relaxivity of PAA-Gd was 4.6-times higher than that of individual Gd-chelates as well as appropriate blood half-life (73.8 min) and low immunogenicity, enabling sophisticated micro-vessels angiography with a resolution at the order of hundred micrometers. A series of animal models of cardiac-cerebrovascular diseases have been built for imaging studies on a 7.0 T MRI scanner, while the clinical translation potential of PAA-Gd has been evaluated on swine on a 3.0 T clinical MRI scanner. The current studies offer a promising strategy for precise diagnosis of vascular diseases.
Collapse
Affiliation(s)
- Peisen Zhang
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Junwei Cheng
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Yijie Lu
- Department of Chemistry, University of Toronto, Toronto, ON, M5S 3H6, Canada
| | - Ni Zhang
- Department of Psychiatry, and Department of Nuclear Medicine, West China Hospital, Sichuan University, Chengdu, 610041, China
| | - Xiaoai Wu
- Department of Psychiatry, and Department of Nuclear Medicine, West China Hospital, Sichuan University, Chengdu, 610041, China
| | - Hua Lin
- Department of Psychiatry, and Department of Nuclear Medicine, West China Hospital, Sichuan University, Chengdu, 610041, China
| | - Wei Li
- Department of Nanomedicine & International Joint Cancer Institute, Naval Medical University, Shanghai, 200433, China.
| | - Jian Wang
- Department of Head and Neck Surgery, National Cancer Center/National Clinical Research Center for Cancer/Cancer Hospital, Chinese Academy of Medical Sciences, Peking Union Medical College, Beijing, 100021, China
| | - Mitchell A Winnik
- Department of Chemistry, University of Toronto, Toronto, ON, M5S 3H6, Canada
| | - Zhihua Gan
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, 100029, China.
| | - Yi Hou
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, 100029, China.
| |
Collapse
|
12
|
Schmidt R, Giubertoni G, Caporaletti F, Kolpakov P, Shahidzadeh N, Ariese F, Woutersen S. Raman Diffusion-Ordered Spectroscopy. J Phys Chem A 2023; 127:7638-7645. [PMID: 37656920 PMCID: PMC10510375 DOI: 10.1021/acs.jpca.3c03232] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2023] [Revised: 08/25/2023] [Indexed: 09/03/2023]
Abstract
The Stokes-Einstein relation, which relates the diffusion coefficient of a molecule to its hydrodynamic radius, is commonly used to determine molecular sizes in chemical analysis methods. Here, we combine the size sensitivity of such diffusion-based methods with the structure sensitivity of Raman spectroscopy by performing Raman diffusion-ordered spectroscopy (Raman-DOSY). The core of the Raman-DOSY setup is a flow cell with a Y-shaped channel containing two inlets: one for the sample solution and one for the pure solvent. The two liquids are injected at the same flow rate, giving rise to two parallel laminar flows in the channel. After the flow stops, the solute molecules diffuse from the solution-filled half of the channel into the solvent-filled half at a rate determined by their hydrodynamic radius. The arrival of the solute molecules in the solvent-filled half of the channel is recorded in a spectrally resolved manner by Raman microspectroscopy. From the time series of Raman spectra, a two-dimensional Raman-DOSY spectrum is obtained, which has the Raman frequency on one axis and the diffusion coefficient (or equivalently, hydrodynamic radius) on the other. In this way, Raman-DOSY spectrally resolves overlapping Raman peaks arising from molecules of different sizes. We demonstrate Raman-DOSY on samples containing up to three compounds and derive the diffusion coefficients of small molecules, proteins, and supramolecules (micelles), illustrating the versatility of Raman-DOSY. Raman-DOSY is label-free and does not require deuterated solvents and can thus be applied to samples and matrices that might be difficult to investigate with other diffusion-based spectroscopy methods.
Collapse
Affiliation(s)
- Robert
W. Schmidt
- Vrije
Universiteit Amsterdam, De Boelelaan 1105, 1081HV Amsterdam, The Netherlands
- University
of Amsterdam, Science Park 904, 1098XH Amsterdam, The Netherlands
| | - Giulia Giubertoni
- University
of Amsterdam, Science Park 904, 1098XH Amsterdam, The Netherlands
| | - Federico Caporaletti
- University
of Amsterdam, Science Park 904, 1098XH Amsterdam, The Netherlands
- Université
Libre de Bruxelles, Av.
Franklin Roosevelt 50, 1050 Bruxelles, Belgium
| | - Paul Kolpakov
- University
of Amsterdam, Science Park 904, 1098XH Amsterdam, The Netherlands
| | | | - Freek Ariese
- Vrije
Universiteit Amsterdam, De Boelelaan 1105, 1081HV Amsterdam, The Netherlands
| | - Sander Woutersen
- University
of Amsterdam, Science Park 904, 1098XH Amsterdam, The Netherlands
| |
Collapse
|
13
|
Saura‐Sanmartin A, Schalley CA. The Mobility of Homomeric Lasso‐ and Daisy Chain‐Like Rotaxanes in Solution and in the Gas Phase as a means to Study Structure and Switching Behaviour. Isr J Chem 2023. [DOI: 10.1002/ijch.202300022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/17/2023]
Affiliation(s)
- Adrian Saura‐Sanmartin
- Departamento de Química Orgánica Facultad de Química Universidad de Murcia Calle Campus Universitario, 5 30100 Murcia Spain
- Institut für Chemie und Biochemie Freie Universität Berlin Arnimallee 20 14195 Berlin Germany
| | - Christoph A. Schalley
- Institut für Chemie und Biochemie Freie Universität Berlin Arnimallee 20 14195 Berlin Germany
| |
Collapse
|
14
|
Solvent transport model for polyamide nanofilm membranes based on accurate Hansen solubility parameters. J Memb Sci 2023. [DOI: 10.1016/j.memsci.2023.121505] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/23/2023]
|
15
|
Yin J, Birman VB. Phenazine-Based Molecular Actuators: The Second Generation. Org Lett 2022; 24:8759-8763. [DOI: 10.1021/acs.orglett.2c03450] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/05/2022]
Affiliation(s)
- Jingwei Yin
- Washington University Department of Chemistry,
Campus Box 1134, One Brookings Drive, Saint Louis, Missouri 63130, United States
| | - Vladimir B. Birman
- Washington University Department of Chemistry,
Campus Box 1134, One Brookings Drive, Saint Louis, Missouri 63130, United States
| |
Collapse
|
16
|
Fardis M, Karagianni M, Gkoura L, Papavassiliou G. Self-Diffusion in Confined Water: A Comparison between the Dynamics of Supercooled Water in Hydrophobic Carbon Nanotubes and Hydrophilic Porous Silica. Int J Mol Sci 2022; 23:ijms232214432. [PMID: 36430907 PMCID: PMC9697084 DOI: 10.3390/ijms232214432] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2022] [Revised: 11/15/2022] [Accepted: 11/17/2022] [Indexed: 11/22/2022] Open
Abstract
Confined liquids are model systems for the study of the metastable supercooled state, especially for bulk water, in which the onset of crystallization below 230 K hinders the application of experimental techniques. Nevertheless, in addition to suppressing crystallization, confinement at the nanoscale drastically alters the properties of water. Evidently, the behavior of confined water depends critically on the nature of the confining environment and the interactions of confined water molecules with the confining matrix. A comparative study of the dynamics of water under hydrophobic and hydrophilic confinement could therefore help to clarify the underlying interactions. As we demonstrate in this work using a few representative results from the relevant literature, the accurate assessment of the translational mobility of water molecules, especially in the supercooled state, can unmistakably distinguish between the hydrophilic and hydrophobic nature of the confining environments. Among the numerous experimental methods currently available, we selected nuclear magnetic resonance (NMR) in a field gradient, which directly measures the macroscopic translational self-diffusion coefficient, and quasi-elastic neutron scattering (QENS), which can determine the microscopic translational dynamics of the water molecules. Dielectric relaxation, which probes the re-orientational degrees of freedom, are also discussed.
Collapse
|
17
|
Tilly DP, Žabka M, Vitorica-Yrezabal I, Sparkes HA, Pridmore N, Clayden J. Supramolecular interactions between ethylene-bridged oligoureas: nanorings and chains formed by cooperative positive allostery. Chem Sci 2022; 13:13153-13159. [PMID: 36425488 PMCID: PMC9667931 DOI: 10.1039/d2sc04716k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2022] [Accepted: 10/24/2022] [Indexed: 12/02/2022] Open
Abstract
Ethylene-bridged oligoureas are dynamic foldamers in which the polarity of a coherent chain of intramolecular hydrogen bonds may be controlled by intra- or intermolecular interactions with hydrogen-bond donors or acceptors. In this paper, we describe the way that supramolecular interactions between ethylene-bridged oligoureas bearing a 3,5-bis(trifluoromethyl)phenylurea (BTMP) terminus leads to higher-order structures both in the crystalline state and in solution. The oligoureas self-assemble by head-to-tail hydrogen bonding interactions to form either supramolecular 'nanorings' with cyclic hydrogen bond chain directionality, or supramolecular helical chains of hydrogen bonds. The self-assembly process features a cascade of cooperative positive allostery, in which each intermolecular hydrogen bond formation at the BTMP terminus switches the native hydrogen bond chain directionality of monomers, favouring further assembly. Monomers with a benzyl urea terminus self-assemble into nanorings, whereas monomers with a N-ethyl urea terminus form helical chains. In the crystal state, parallel helices have identical handedness and polarity, whereas antiparallel helices have opposite handedness. The overall dipole moment of crystals is zero due to the antiparallel arrangements of local dipoles in the crystal packing. Supramolecular interactions in solution were also examined by VT and DOSY NMR spectroscopy, up to the point of crystal formation. The size of higher aggregates in dichloromethane was estimated by their hydrodynamic radius. The relative orientation of the monomers within the aggregates, determined by 2D ROESY NMR, was the same as in the crystals, where syn-orientations lead to the formation of rings and anti-orientations result in chains. Overall, the switch of hydrogen bond polarity propagates intermolecularly in crystal and solution states, constituting an example of intermolecular communication within supramolecular polymers.
Collapse
Affiliation(s)
- David P Tilly
- School of Chemistry, University of Bristol Cantock's Close Bristol BS8 1TS UK
- Department of Chemistry, University of Manchester Oxford Road Manchester M13 9PL UK
| | - Matej Žabka
- School of Chemistry, University of Bristol Cantock's Close Bristol BS8 1TS UK
| | | | - Hazel A Sparkes
- School of Chemistry, University of Bristol Cantock's Close Bristol BS8 1TS UK
| | - Natalie Pridmore
- School of Chemistry, University of Bristol Cantock's Close Bristol BS8 1TS UK
| | - Jonathan Clayden
- School of Chemistry, University of Bristol Cantock's Close Bristol BS8 1TS UK
| |
Collapse
|
18
|
Baba H, Urano R, Nagai T, Okazaki S. Prediction of self-diffusion coefficients of chemically diverse pure liquids by all-atom molecular dynamics simulations. J Comput Chem 2022; 43:1892-1900. [PMID: 36128785 PMCID: PMC9804551 DOI: 10.1002/jcc.26975] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2022] [Accepted: 07/19/2022] [Indexed: 01/05/2023]
Abstract
Molecular self-diffusion coefficients underlie various kinetic properties of the liquids involved in chemistry, physics, and pharmaceutics. In this study, 547 self-diffusion coefficients are calculated based on all-atom molecular dynamics (MD) simulations of 152 diverse pure liquids at various temperatures employing the OPLS4 force field. The calculated coefficients are compared with experimental data (424 extracted from the literature and 123 newly measured by pulsed-field gradient nuclear magnetic resonance). The calculations well agree with the experimental values. The determination coefficient and root mean square error between the observed and calculated logarithmic self-diffusion coefficients of the 547 entries are 0.931 and 0.213, respectively, demonstrating that the MD calculation can be an excellent industrial tool for predicting, for example, molecular transportation in liquids such as the diffusion of active ingredients in biological and pharmaceutical liquids. The self-diffusion coefficients collected in this study are compiled into a database for broad researches including artificial intelligence calculations.
Collapse
Affiliation(s)
- Hiromi Baba
- New Modality Research Group, Research DepartmentKyoto R&D Center, Maruho Co., Ltd.KyotoJapan,Department of Advanced Materials ScienceThe University of TokyoChibaJapan
| | - Ryo Urano
- Research Institute for Interdisciplinary ScienceOkayama UniversityOkayamaJapan
| | - Tetsuro Nagai
- Department of Advanced Materials ScienceThe University of TokyoChibaJapan,Department of Chemistry, Faculty of ScienceFukuoka UniversityNanakumaJapan
| | - Susumu Okazaki
- Department of Advanced Materials ScienceThe University of TokyoChibaJapan
| |
Collapse
|
19
|
Manoukian L, Correa JA, Stein RS, Frigon D, Omelon S. Extraction processes reduce polyphosphate ion migration, dispersion and diffusion as detected with gel electrophoresis and
31
P DOSY NMR. Electrophoresis 2022; 43:2014-2022. [DOI: 10.1002/elps.202100364] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2021] [Revised: 07/10/2022] [Accepted: 08/08/2022] [Indexed: 11/07/2022]
Affiliation(s)
- Lori Manoukian
- Department of Mining and Materials Engineering McGill University Montreal Quebec Canada
| | - José A. Correa
- Department of Mathematics and Statistics McGill University Montreal Quebec Canada
| | - Robin S. Stein
- Department of Chemistry McGill University Montreal Quebec Canada
| | - Dominic Frigon
- Department of Civil Engineering McGill University Montreal Quebec Canada
| | - Sidney Omelon
- Department of Mining and Materials Engineering McGill University Montreal Quebec Canada
| |
Collapse
|
20
|
Ryabov A, Tasinkevych M. Diffusion coefficient and power spectrum of active particles with a microscopically reversible mechanism of self-propelling. J Chem Phys 2022; 157:104108. [DOI: 10.1063/5.0101520] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Catalytically active macromolecules are envisioned as key building blocks in development of artificial nanomotors. However, theory and experiments report conflicting findings regarding their dynamics. The lack of consensus is mostly caused by a limited understanding of specifics of self-propulsion mechanisms at the nanoscale. Here, we study a generic model of a self-propelled nanoparticle that does not rely on a particular mechanism. Instead, its main assumption is the fundamental symmetry of microscopic dynamics of chemical reactions: the principle of microscopic reversibility. Significant consequences of this assumption arise if we subject the particle to an action of an external time-periodic force. The particle diffusion coefficient is then enhanced compared to the unbiased dynamics. The enhancement can be controlled by the force amplitude and frequency. We also derive the power spectrum of particle trajectories. Among new effects stemming from the microscopic reversibility are the enhancement of the spectrum at all frequencies and sigmoid-shaped transitions and a peak at characteristic frequencies of rotational diffusion and external forcing. The microscopic reversibility is a generic property of a broad class of chemical reactions, therefore we expect that the presented results will motivate new experimental studies aimed at testing of our predictions. This could provide new insights into dynamics of catalytic macromolecules.
Collapse
Affiliation(s)
- Artem Ryabov
- Faculty of Mathematics and Physics, Department of Macromolecular Physics, Charles University, Czech Republic
| | | |
Collapse
|
21
|
Lhoste C, Lorandel B, Praud C, Marchand A, Mishra R, Dey A, Bernard A, Dumez JN, Giraudeau P. Ultrafast 2D NMR for the analysis of complex mixtures. PROGRESS IN NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY 2022; 130-131:1-46. [PMID: 36113916 DOI: 10.1016/j.pnmrs.2022.01.002] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/12/2021] [Revised: 01/21/2022] [Accepted: 01/23/2022] [Indexed: 06/15/2023]
Abstract
2D NMR is extensively used in many different fields, and its potential for the study of complex biochemical or chemical mixtures has been widely demonstrated. 2D NMR gives the ability to resolve peaks that overlap in 1D spectra, while providing both structural and quantitative information. However, complex mixtures are often analysed in situations where the data acquisition time is a crucial limitation, due to an ongoing chemical reaction or a moving sample from a hyphenated technique, or to the high-throughput requirement associated with large sample collections. Among the great diversity of available fast 2D methods, ultrafast (or single-scan) 2D NMR is probably the most general and versatile approach for complex mixture analysis. Indeed, ultrafast NMR has undergone an impressive number of methodological developments that have helped turn it into an efficient analytical tool, and numerous applications to the analysis of mixtures have been reported. This review first summarizes the main concepts, features and practical limitations of ultrafast 2D NMR, as well as the methodological developments that improved its analytical potential. Then, a detailed description of the main applications of ultrafast 2D NMR to mixture analysis is given. The two major application fields of ultrafast 2D NMR are first covered, i.e., reaction/process monitoring and metabolomics. Then, the potential of ultrafast 2D NMR for the analysis of hyperpolarized mixtures is described, as well as recent developments in oriented media. This review focuses on high-resolution liquid-state 2D experiments (including benchtop NMR) that include at least one spectroscopic dimension (i.e., 2D spectroscopy and DOSY) but does not cover in depth applications without spectral resolution and/or in inhomogeneous fields.
Collapse
Affiliation(s)
- Célia Lhoste
- Nantes Université, CNRS, CEISAM UMR 6230, Nantes F-44000, France
| | | | - Clément Praud
- Nantes Université, CNRS, CEISAM UMR 6230, Nantes F-44000, France
| | - Achille Marchand
- Nantes Université, CNRS, CEISAM UMR 6230, Nantes F-44000, France
| | - Rituraj Mishra
- Nantes Université, CNRS, CEISAM UMR 6230, Nantes F-44000, France
| | - Arnab Dey
- Nantes Université, CNRS, CEISAM UMR 6230, Nantes F-44000, France
| | - Aurélie Bernard
- Nantes Université, CNRS, CEISAM UMR 6230, Nantes F-44000, France
| | | | | |
Collapse
|
22
|
Szabó CL, Sebák F, Bodor A. Monitoring Protein Global and Local Parameters in Unfolding and Binding Studies: The Extended Applicability of the Diffusion Coefficient─Molecular Size Empirical Relations. Anal Chem 2022; 94:7885-7891. [PMID: 35617314 DOI: 10.1021/acs.analchem.2c00481] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Protein unfolding and denaturation are main issues in biochemical and pharmaceutical research. Using a global parameter, the translational diffusion coefficient D, folded, unfolded, and intrinsically disordered proteins of a given molar mass M can be distinguished based on their distinct hydrodynamic properties. For broader applications, we provide generalized, PFG-NMR-based empirical D-M relations validated at different temperatures and ready to use with the corresponding corrections in different media. We demonstrate that these relations enable a more accurate molecular mass determination and show fewer potential errors than those of the common methods based on small-molecular diffusion standards. We monitor unfolding of three model proteins using 8 M urea and dimethyl sulfoxide (DMSO)-water mixtures as denaturing agents, highlighting the effect of disulfide bonds. Denaturation in 8 M urea is pH-dependent; in addition, for proteins with highly stable disulfide bonds, a reducing agent (TCEP) is required to achieve complete unfolding. Regarding the effect of local parameters, we show that at low DMSO concentrations─common conditions in pharmaceutical binding studies─the PFG-NMR-derived global parameters are not significantly affected. Still, the atomic environments can change, and the bound solvent molecule can inhibit the binding of a partner molecule. Using proteins with natural isotopic abundance, this effect can be proven by fast 1H-15N 2D correlation spectra. Our results enable fast and easy estimation of protein molecular mass and the degree of folding in various media; moreover, the effect of the cosolvent on the atomic-level structure can be traced without the need of isotope labeling.
Collapse
Affiliation(s)
- Csenge Lilla Szabó
- Institute of Chemistry, Analytical and BioNMR Laboratory, Eötvös Loránd University, Pázmány Péter sétány 1/a, Budapest 1117, Hungary.,Hevesy György PhD School of Chemistry, Eötvös Loránd University, Pázmány Péter sétány 1/a, Budapest 1117, Hungary
| | - Fanni Sebák
- Institute of Chemistry, Analytical and BioNMR Laboratory, Eötvös Loránd University, Pázmány Péter sétány 1/a, Budapest 1117, Hungary
| | - Andrea Bodor
- Institute of Chemistry, Analytical and BioNMR Laboratory, Eötvös Loránd University, Pázmány Péter sétány 1/a, Budapest 1117, Hungary
| |
Collapse
|
23
|
Ben-Tal Y, Boaler PJ, Dale HJA, Dooley RE, Fohn NA, Gao Y, García-Domínguez A, Grant KM, Hall AMR, Hayes HLD, Kucharski MM, Wei R, Lloyd-Jones GC. Mechanistic analysis by NMR spectroscopy: A users guide. PROGRESS IN NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY 2022; 129:28-106. [PMID: 35292133 DOI: 10.1016/j.pnmrs.2022.01.001] [Citation(s) in RCA: 27] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2020] [Revised: 01/05/2022] [Accepted: 01/06/2022] [Indexed: 06/14/2023]
Abstract
A 'principles and practice' tutorial-style review of the application of solution-phase NMR in the analysis of the mechanisms of homogeneous organic and organometallic reactions and processes. This review of 345 references summarises why solution-phase NMR spectroscopy is uniquely effective in such studies, allowing non-destructive, quantitative analysis of a wide range of nuclei common to organic and organometallic reactions, providing exquisite structural detail, and using instrumentation that is routinely available in most chemistry research facilities. The review is in two parts. The first comprises an introduction to general techniques and equipment, and guidelines for their selection and application. Topics include practical aspects of the reaction itself, reaction monitoring techniques, NMR data acquisition and processing, analysis of temporal concentration data, NMR titrations, DOSY, and the use of isotopes. The second part comprises a series of 15 Case Studies, each selected to illustrate specific techniques and approaches discussed in the first part, including in situ NMR (1/2H, 10/11B, 13C, 15N, 19F, 29Si, 31P), kinetic and equilibrium isotope effects, isotope entrainment, isotope shifts, isotopes at natural abundance, scalar coupling, kinetic analysis (VTNA, RPKA, simulation, steady-state), stopped-flow NMR, flow NMR, rapid injection NMR, pure shift NMR, dynamic nuclear polarisation, 1H/19F DOSY NMR, and in situ illumination NMR.
Collapse
Affiliation(s)
- Yael Ben-Tal
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom
| | - Patrick J Boaler
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom
| | - Harvey J A Dale
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom
| | - Ruth E Dooley
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom; Evotec (UK) Ltd, 114 Innovation Drive, Milton Park, Abingdon, Oxfordshire OX14 4RZ, United Kingdom
| | - Nicole A Fohn
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom
| | - Yuan Gao
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom
| | - Andrés García-Domínguez
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom
| | - Katie M Grant
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom
| | - Andrew M R Hall
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom
| | - Hannah L D Hayes
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom
| | - Maciej M Kucharski
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom
| | - Ran Wei
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom
| | - Guy C Lloyd-Jones
- School of Chemistry, Joseph Black Building, David Brewster Road, Edinburgh, EH9 3FJ, United Kingdom.
| |
Collapse
|
24
|
Graham TR, Chun J, Schenter GK, Zhang X, Clark SB, Pearce CI, Rosso KM. 27 Al NMR diffusometry of Al 13 Keggin nanoclusters. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2022; 60:226-238. [PMID: 34536037 DOI: 10.1002/mrc.5218] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/11/2021] [Revised: 08/01/2021] [Accepted: 09/13/2021] [Indexed: 06/13/2023]
Abstract
Although nanometer-sized aluminum hydroxide clusters (i.e., ϵ-Al13 , [Al13 O4 (OH)24 (H2 O)12 ]7+ ) command a central role in aluminum ion speciation and transformations between minerals, measurement of their translational diffusion is often limited to indirect methods. Here, 27 Al pulsed field gradient stimulated echo nuclear magnetic resonance (PFGSTE NMR) spectroscopy has been applied to the AlO4 core of the ϵ-Al13 cluster with complementary theoretical simulations of the diffusion coefficient and corresponding hydrodynamic radii from a boundary element-based calculation. The tetrahedral AlO4 center of the ϵ-Al13 cluster is symmetric and exhibits only weak quadrupolar coupling, which results in favorable T1 and T2 27 Al NMR relaxation coefficients for 27 Al PFGSTE NMR studies. Stokes-Einstein relationship was used to relate the 27 Al diffusion coefficient of the ϵ-Al13 cluster to the hydrodynamic radius for comparison with theoretical simulations, dynamic light scattering from literature, and previously published 1 H PFGSTE NMR studies of chelated Keggin clusters. This first-of-its-kind observation proves that 27 Al PFGSTE NMR diffusometry can probe symmetric Al environments in polynuclear clusters of greater molecular weight than previously considered.
Collapse
Affiliation(s)
- Trent R Graham
- Pacific Northwest National Laboratory, Richland, WA 99354, USA
| | - Jaehun Chun
- Pacific Northwest National Laboratory, Richland, WA 99354, USA
| | - Gregory K Schenter
- Pacific Northwest National Laboratory, Richland, WA 99354, USA
- Department of Chemistry, Washington State University, Pullman, WA 99164, USA
| | - Xin Zhang
- Pacific Northwest National Laboratory, Richland, WA 99354, USA
| | - Sue B Clark
- Pacific Northwest National Laboratory, Richland, WA 99354, USA
- Department of Chemistry, Washington State University, Pullman, WA 99164, USA
| | - Carolyn I Pearce
- Pacific Northwest National Laboratory, Richland, WA 99354, USA
- Department of Crop & Soil Sciences, Washington State University, Pullman, WA 99164, USA
| | - Kevin M Rosso
- Pacific Northwest National Laboratory, Richland, WA 99354, USA
| |
Collapse
|
25
|
Aghelnejad B, Bodenhausen G, Pelupessy P. A Direct NMR Method To Measure Self-Diffusion Coefficients in Liquids by Monitoring Diffusing Molecules through One-Dimensional Imaging. Chemphyschem 2021; 23:e202100786. [PMID: 34914864 DOI: 10.1002/cphc.202100786] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2021] [Indexed: 11/08/2022]
Abstract
Diffusion processes can be followed directly by recording one-dimensional images of a selected slice at variable intervals after selective inversion of the magnetization. The resulting diffusion coefficients of H2 O and DMSO are consistent with earlier studies at different temperatures, obtained by monitoring the attenuation of NMR signals as a function of the gradient amplitude in gradient echo sequences.
Collapse
Affiliation(s)
- Behdad Aghelnejad
- Department of chemistry, École normale supérieure, PSL University, 24 Rue Lhomond, 75005, Paris, France.,Bruker Biospin SAS, 34 Rue de l'Industrie, 67160, Wissembourg, France.,Current address: School of Engineering and Applied Sciences, Harvard University, Cambridge, MA 02138, USA
| | - Geoffrey Bodenhausen
- Department of chemistry, École normale supérieure, PSL University, 24 Rue Lhomond, 75005, Paris, France
| | - Philippe Pelupessy
- Department of chemistry, École normale supérieure, PSL University, 24 Rue Lhomond, 75005, Paris, France
| |
Collapse
|
26
|
Bezrukov A, Galyametdinov Y. Characterizing properties of polymers and colloids by their reaction-diffusion behavior in microfluidic channels. Colloids Surf A Physicochem Eng Asp 2021. [DOI: 10.1016/j.colsurfa.2021.127565] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
|
27
|
Aldrich KE, Livshits MY, Stromberg LR, Janicke MT, Nhu Lam M, Stein B, Wagner GL, Abergel RJ, Mukundan H, Kozimor SA, Lilley LM. Th IV-Desferrioxamine: characterization of a fluorescent bacterial probe. Dalton Trans 2021; 50:15310-15320. [PMID: 34636377 DOI: 10.1039/d1dt02177j] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Diversifying our ability to guard against emerging pathogenic threats is essential for keeping pace with global health challenges, including those presented by drug-resistant bacteria. Some modern diagnostic and therapeutic innovations to address this challenge focus on targeting methods that exploit bacterial nutrient sequestration pathways, such as the desferrioxamine (DFO) siderophore used by Staphylococcus aureus (S. aureus) to sequester FeIII. Building on recent studies that have shown DFO to be a versatile vehicle for chemical delivery, we show proof-of-principle that the FeIII sequestration pathway can be used to deliver a potential radiotherapeutic. Our approach replaces the FeIII nutrient sequestered by H4DFO+ with ThIV and made use of a common fluorophore, FITC, which we covalently bonded to DFO to provide a combinatorial probe for simultaneous chelation paired with imaging and spectroscopy, H3DFO_FITC. Combining insight provided from FITC-based imaging with characterization by NMR spectroscopy, we demonstrated that the fluorescent DFO_FITC conjugate retained the ThIV chelation properties of native H4DFO+. Fluorescence microscopy with both [Th(DFO_FITC)] and [Fe(DFO_FITC)] complexes showed similar uptake by S. aureus and increased intercellular accumulation as compared to the FITC and unchelated H3DFO_FITC controls. Collectively, these results demonstrate the potential for the newly developed H3DFO_FITC conjugate to be used as a targeting vector and bacterial imaging probe for S. aureus. The results presented within provide a framework to expand H4DFO+ and H3DFO_FITC to relevant radiotherapeutics (like 227Th).
Collapse
Affiliation(s)
| | | | | | | | - Mila Nhu Lam
- Los Alamos National Laboratory, Los Alamos, New Mexico, 87545, USA.
| | - Benjamin Stein
- Los Alamos National Laboratory, Los Alamos, New Mexico, 87545, USA.
| | | | - Rebecca J Abergel
- Department of Chemistry, University of California, Berkeley, California, 94720, USA
| | | | | | | |
Collapse
|
28
|
De Man WL, Vaneeckhaute E, De Brier N, Wouters AGB, Martens JA, Breynaert E, Delcour JA. 1H Diffusion-Ordered Nuclear Magnetic Resonance Spectroscopic Analysis of Water-Extractable Arabinoxylan in Wheat ( Triticum aestivum L.) Flour. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2021; 69:3912-3922. [PMID: 33780246 DOI: 10.1021/acs.jafc.1c00180] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The structural heterogeneity of water-extractable arabinoxylan (WE-AX) impacts wheat flour functionality. 1H diffusion-ordered (DOSY) nuclear magnetic resonance (NMR) spectroscopy revealed structural heterogeneity within WE-AX fractions obtained via graded ethanol precipitation. Combination with high-resolution 1H-1H correlation NMR spectroscopy (COSY) allowed identifying the relationship between the xylose substitution patterns and diffusion properties of the subpopulations. WE-AX fractions contained distinct subpopulations with different diffusion rates. WE-AX subpopulations with a high self-diffusivity contained high levels of monosubstituted xylose. In contrast, those with a low self-diffusivity were rich in disubstituted xylose, suggesting that disubstitution mainly occurs in WE-AX molecules with large hydrodynamic volumes. In general, WE-AX fractions precipitating at higher and lower ethanol concentrations had higher and lower self-diffusivity and more and less complex substitution patterns. Although 1H DOSY NMR, as performed in this study, was valuable for elucidating WE-AX structural heterogeneity, physical limitations arose when studying WE-AX populations with high molecular weight dispersions.
Collapse
Affiliation(s)
- Wannes L De Man
- Laboratory of Food Chemistry and Biochemistry and Leuven Food Science and Nutrition Research Centre (LFoRCe), KU Leuven, Kasteelpark Arenberg 23, B-3001 Heverlee, Belgium
| | - Ewoud Vaneeckhaute
- COK-KAT, KU Leuven, Celestijnenlaan 200F-box 2461, B-3001 Heverlee, Belgium
- NMRCoRe, KU Leuven, Celestijnenlaan 200F-box 2461, B-3001 Heverlee, Belgium
| | - Niels De Brier
- Laboratory of Food Chemistry and Biochemistry and Leuven Food Science and Nutrition Research Centre (LFoRCe), KU Leuven, Kasteelpark Arenberg 23, B-3001 Heverlee, Belgium
| | - Arno G B Wouters
- Laboratory of Food Chemistry and Biochemistry and Leuven Food Science and Nutrition Research Centre (LFoRCe), KU Leuven, Kasteelpark Arenberg 23, B-3001 Heverlee, Belgium
| | - Johan A Martens
- COK-KAT, KU Leuven, Celestijnenlaan 200F-box 2461, B-3001 Heverlee, Belgium
- NMRCoRe, KU Leuven, Celestijnenlaan 200F-box 2461, B-3001 Heverlee, Belgium
| | - Eric Breynaert
- COK-KAT, KU Leuven, Celestijnenlaan 200F-box 2461, B-3001 Heverlee, Belgium
- NMRCoRe, KU Leuven, Celestijnenlaan 200F-box 2461, B-3001 Heverlee, Belgium
| | - Jan A Delcour
- Laboratory of Food Chemistry and Biochemistry and Leuven Food Science and Nutrition Research Centre (LFoRCe), KU Leuven, Kasteelpark Arenberg 23, B-3001 Heverlee, Belgium
| |
Collapse
|
29
|
Nishinari K, Fang Y. Molar mass effect in food and health. Food Hydrocoll 2021; 112:106110. [PMID: 32895590 PMCID: PMC7467918 DOI: 10.1016/j.foodhyd.2020.106110] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2019] [Revised: 06/12/2020] [Accepted: 06/15/2020] [Indexed: 12/26/2022]
Abstract
It is demanded to supply foods with good quality for all the humans. With the advent of aging society, palatable and healthy foods are required to improve the quality of life and reduce the burden of finance for medical expenditure. Food hydrocolloids can contribute to this demand by versatile functions such as thickening, gelling, stabilising, and emulsifying, controlling texture and flavour release in food processing. Molar mass effects on viscosity and diffusion in liquid foods, and on mechanical and other physical properties of solid and semi-solid foods and films are overviewed. In these functions, the molar mass is one of the key factors, and therefore, the effects of molar mass on various health problems related to noncommunicable diseases or symptoms such as cancer, hyperlipidemia, hyperglycemia, constipation, high blood pressure, knee pain, osteoporosis, cystic fibrosis and dysphagia are described. Understanding these problems only from the viewpoint of molar mass is limited since other structural characteristics, conformation, branching, blockiness in copolymers such as pectin and alginate, degree of substitution as well as the position of the substituents are sometimes the determining factor rather than the molar mass. Nevertheless, comparison of different behaviours and functions in different polymers from the viewpoint of molar mass is expected to be useful to find a common characteristics, which may be helpful to understand the mechanism in other problems.
Collapse
Affiliation(s)
- Katsuyoshi Nishinari
- Glyn O. Phillips Hydrocolloids Research Centre, School of Food and Biological Engineering, Hubei University of Technology, Wuhan, 430068, PR China
- Department of Food and Nutrition, Graduate School of Human Life Science, Osaka City University, Osaka, 558-6565, Japan
| | - Yapeng Fang
- Department of Food Science and Technology, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240, PR China
| |
Collapse
|
30
|
Szalontai G. Exchange-modified DOSY experiments. the use of chiral solvating agents and lanthanide shift reagents as matrices. NEW J CHEM 2021. [DOI: 10.1039/d1nj01920a] [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
(S)-BINOL and Eu(fod)3 were tried as matrices to improve DOSY performance and Dt and MW prediction power on small organic molecules.
Collapse
|