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Renewal of the 600 MHz solid-state NMR console for biological applications

Lead Research Organisation: University of Warwick
Department Name: Chemistry

Abstract

Solid-state NMR is uniquely positioned to provide atomic resolution structural and dynamic information on complex biological systems that is highly complementary to other structural biology and biophysical techniques. It is used by researchers in the life and physical sciences to address complex problems in systems ranging from proteins to cells and even intact plants.
This in turn leads to advancements in key areas from sustainable and resilient agriculture, safe nutritious food, new pharmaceuticals and better health to new low-carbon 'greener' energy, materials and everyday products.
In this proposal we request to replace an obsolete and often malfunctioning solid-state NMR console with a new state-of-the-art console and two accompanying NMR probes in order to be able to perform a wide range of experiments not only faster but also on more challenging and complex systems and thus tackle a wider set of challenges related to the important societal issues. NMR probes exist in a variety of different specifications, notably with different rotor diameters as well as the number and tuning range of the rf channels - allowing different isotopes to be studied, e.g., hydrogen, carbon, nitrogen and fluorine - and different probes are best suited to different applications. The added value of the upgrade is that there is a number of other NMR probes acquired over time that could be used with the new console and benefit from presented by it improvements. This equipment will be used in a multiuser and multidisciplinary environment where scientists from different disciplines work together in order to maximise a chance of solving important problems that cannot be solved with a single "magic bullet" scientific approach.
Another important aspect of this proposal is that it will enable us to train a new generation of scientists on a state-of-the-art equipment. PhD and postdocs, who would benefit from such training, could carry the skills and the knowledge they acquired as a result of it as independent scientists in academic or industrial setting and apply it to tackling new challenges.
Finally, we also propose to make available to the wider scientific community part of the time on this specialised instrument for "taster" sessions during which they can test whether this methodology can provide answers to their scientific problems. Because of the highly specialised nature of solid-state NMR the end users would be supported by and could tap into the high-level expertise of the local scientists. If longer projects would be required, they could be pursued as collaborations with the experienced local scientists.

Technical Summary

We propose to renew the > 12 years old obsolete 600 MHz SSNMR rf console with a new state-of-the-art console together with the acquisition of new 3.2 mm HXY E-free and 1.3 mm HFX magic angle spinning probes, to enable molecular level characterisation of structure and dynamics of a wide range of biological systems from proteins to cells and intact plants in a multiuser collaborative environment. The new console will result in improvements in sensitivity (especially for 1H detected experiments often required for applications to complex systems), stability (through implementation of the 2H lock), increase of information content (e.g. measuring several experiments at the same time using multiple receivers) and enabling a range of modern experiments not possible or not practical with the current console. The 3.2 mm E-free probe will enable structural and dynamical measurements on hydrated and salty samples such as intact plants. The 1.3 mm HFX probe will enable a wide range of experiments for characterising structure and dynamics in large protein complexes by leveraging the general lack of fluorine background in biological systems and long-range nature for distance restraints involving fluorine. The added value of the upgrade is that it will also bring new life to the existing unique probes available at the 600 MHz instrument leveraging previous investments from EPSRC and BBSRC and provide access to them for the wider community. These include the only in the UK 0.8 mm MAS Samoson probe spinning up to 100 kHz with superior sensitivity due to the largest sample volume from the available 100 kHz MAS designs and a double rotation (DOR) probe providing unique capabilities for quadrupolar nuclei, e.g. 17O.
We propose a mechanism where up to 5% of the instrument time would be dedicated to provide access to the wider scientific community to this specialised instrumentation and solid-state NMR expertise at University of Warwick in a form of short solid-state NMR "tasters".

Planned Impact

The proposed renewal of 600 MHz solid-state NMR spectrometer will deliver impact for the UK academic and industrial sectors and the wider society by enabling new interdisciplinary science in the BBSRC remit that is well-aligned with its strategic priorities but also, in part, supporting state-of-the-art research in a wider context, especially EPSRC remit. In the recognition of the latter fact EPSRC has declared 30% support for this bid.
New technologies and tools impact on key areas from sustainable and resilient agriculture, safe nutritious food, new pharmaceuticals and better health to new low-carbon 'greener' energy, materials and everyday products. To understand living systems and how they function, can often require access to methodologies that provide atomic scale information, such as NMR. From numerous research projects enabled by the proposed equipment specific examples include studies of intact plants and studies of biological systems involved in producing new bioactive compounds. The insight into the molecular architecture of plant cell walls from solid-state NMR provides new knowledge for the development of improved strategies for use of plant materials for biorefining and for breakdown of plant biomass for second generation bioenergy. It also supports the strategic priority of food security by providing knowledge for understanding animal feed digestibility and reducing food waste. The second specific example of research enabled by the proposed instrumentation is motivated by a desire to better understand the biosynthesis of natural products with important applications in medicine and agriculture, and to devise improved strategies for engineering the biosynthetic pathways for such molecules to produce novel derivatives (an important sub-discipline of synthetic biology). The ultimate goal is to create new products with biological activities ranging from antibacterial, antifungal, anticancer, cholesterol-lowering, or immunosuppressant, to herbicidal or insecticidal.
In addition, the instrumentation will help to generate insight for systems and issues of direct technological importance to as reflected, e.g. in support for this bid from industrial project partners, AstraZeneca and GlaxoSmithKline. The spectrometer will support other active collaboration with industrial partners including Johnson Matthey, Infineum, Pfizer, NovoBiotic and Syngenta. Further engagements with SMEs involved in drug discovery activities will be pursued in collaboration with Medicines Discovery Catapult.
Another impact resulting from this project is training a generation of PhD students and PDRAs in state-of-the-art solid-state NMR, who can disseminate and apply their knowledge through independent academic careers, and/or contribute to developing the UK's portfolio of new and existing pharmaceutical, agrochemical and biotechnology companies.
 
Description The central aim of this award was to renew the 600 MHz SSNMR rf console together with the acquisition of new 3.2 mm HXY E-free and 1.3 mm HFX magic angle spinning probes, to enable molecular level characterisation of structure and dynamics of a wide range of biological systems from proteins to cells and intact plants in a multiuser collaborative environment. This objective was achieved and the instrument started producing useful data on the themes mentioned in the proposal. For example, the availability of HFX probe has enabled development of new streamlined method to characterise binding between proteins involved in natural products biosynthesis. Similarly, 3.2 mm Efree probe has proven instrumental for studying isotopically labelled intact plants.
Exploitation Route The methodology enabled by this upgrade facilitates characterisation of proteins involved in natural products biosynthesis, which in turn can be used to guide their rational engineering to produce new compounds using synthetic biology approach.
Another area where this upgraded instrument is applied is characterisation of intact plants, which is important in the context of renewable resources, e.g. processing of cellulose.
Sectors Agriculture

Food and Drink

Energy

Healthcare

Manufacturing

including Industrial Biotechology

Pharmaceuticals and Medical Biotechnology

URL https://warwick.ac.uk/fac/sci/physics/research/condensedmatt/nmr/
 
Description The instrument upgrade has provided capabilities that enabled establishment of new both academic (e.g. with Warwick Medical School) and industrial collaborations (e.g. Novartis, AstraZeneca and GSK). The instrument has been also used to provide access via PANACEA programme. One of the students used results obtained with this instrument in their presentation in the Parliament.
First Year Of Impact 2024
Sector Healthcare
Impact Types Policy & public services

 
Description (PANACEA) - A Pan-European Solid-State NMR Infrastructure for Chemistry-Enabling Access
Amount € 4,998,891 (EUR)
Funding ID 101008500 
Organisation European Commission 
Sector Public
Country Belgium
Start 08/2021 
End 08/2025
 
Description Enabling new characterisation methods for dynamic systems through the upgrade of 700 MHz solution NMR spectrometer
Amount £799,374 (GBP)
Funding ID BB/W020297/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 07/2022 
End 07/2023
 
Description Illuminating and exploiting programmed O-methylation in trans-AT polyketide synthases
Amount £795,019 (GBP)
Funding ID BB/W003171/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 09/2021 
End 09/2024
 
Description Mechanism and Structure of Functional Materials by Solid-state NMR
Amount £1,435,589 (GBP)
Funding ID EP/X041751/1 
Organisation Engineering and Physical Sciences Research Council (EPSRC) 
Sector Public
Country United Kingdom
Start 05/2024 
End 06/2029
 
Description Multidisciplinary toolbox for characterising lipid II binding antibiotics
Amount £743,845 (GBP)
Funding ID EP/Z535709/1 
Organisation Engineering and Physical Sciences Research Council (EPSRC) 
Sector Public
Country United Kingdom
Start 03/2025 
End 03/2028
 
Description NMR at 1.2 GHz: A World-Leading UK Facility to Deliver Advances in Biology, Chemistry, and Materials Science
Amount £16,836,161 (GBP)
Funding ID EP/X019640/1 
Organisation Engineering and Physical Sciences Research Council (EPSRC) 
Sector Public
Country United Kingdom
Start 01/2023 
End 12/2027
 
Description NMR at 1.2 GHz: A World-Leading UK Facility to Deliver Advances in Biology, Chemistry, and Materials Science
Amount £16,836,161 (GBP)
Funding ID EP/X019640/1 
Organisation Engineering and Physical Sciences Research Council (EPSRC) 
Sector Public
Country United Kingdom
Start 01/2023 
End 12/2028
 
Description Pushing the Limits of High-Field Solid-State NMR Technology: Enhancing Applications to Advanced Materials, the Life Sciences and Pharmaceuticals
Amount £864,879 (GBP)
Funding ID EP/Z531200/1 
Organisation Engineering and Physical Sciences Research Council (EPSRC) 
Sector Public
Country United Kingdom
Start 11/2024 
End 10/2027
 
Description Solid state and solution NMR spectroscopy and cryo-electron microscopy methodology for the characterisation of aggregation mechanisms in proteins
Amount £102,026 (GBP)
Funding ID BB/V50967X/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 08/2020 
End 09/2024
 
Title Pulse programs and tools to set up nested simultaneous measurements of various NMR relaxation rates to quantify protein motions 
Description The introduced method allows for simultaneous measurement of 15N, 13C' and 13CA spin lattice relaxation rates for quantifying protein motions. This method leads to up to 2.5 times accelaration in acquistion of these very time consuming experiments leading to much more effective use of NMR spectrometer time. 
Type Of Material Improvements to research infrastructure 
Year Produced 2022 
Provided To Others? Yes  
Impact n/a 
URL https://zenodo.org/doi/10.5281/zenodo.5965022
 
Title An alternate route for cellulose microfibril biosynthesis in plants 
Description Like cellulose synthases (CESAs), cellulose synthase-like D (CSLD) proteins synthesize ß-1,4 glucan in plants. CSLDs are important for tip growth and cytokinesis, but it was unknown whether they form membrane complexes in vivo or produce microfibrillar cellulose. We produced viable CESA-deficient mutants of the moss Physcomitrium patens and used them to investigate CSLD function in the absence of interfering CESA activity. Microscopy and spectroscopy showed that the CESA-deficient mutants synthesize cellulose microfibrils that are indistinguishable from those in vascular plants. Correspondingly, freeze-fracture electron microscopy revealed rosette-shaped particle assemblies in the plasma membrane that are indistinguishable from CESA-containing rosette cellulose synthesis complexes (CSCs). Our data show that proteins other than CESAs, most likely CSLDs, produce cellulose microfibrils in P. patens protonemal filaments. They also suggest that the specialized roles of CSLDs in cytokinesis and tip growth are based on differential expression and different interactions with microtubules and possibly Ca2+, rather than structural differences in the microfibrils they produce. 
Type Of Material Database/Collection of data 
Year Produced 2024 
Provided To Others? Yes  
URL https://datadryad.org/stash/dataset/doi:10.5061/dryad.n02v6wx5j
 
Title Spin Diffusion under Fast Magic-Angle Spinning in Solid-State NMR 
Description Supporting data, scripts, and source code to go with the paper manuscript. 
Type Of Material Database/Collection of data 
Year Produced 2023 
Provided To Others? Yes  
Impact n/a 
URL https://zenodo.org/record/7521397
 
Title Tourbillon code for performing very large spin diffusion simulations at fast magic angle spinning 
Description Tourbillon performs simulations of polarisation transfer among protons using low-order correlations in Liouville space. This is a modified version of the code originally distributed as supplementary information for "Ab initio simulation of proton spin diffusion" by J.N. Dumez, M.C. Butler, E. Salager, B. Elena and L. Emsley. This code has been modified to add restricted basis sets, to use unordered mapsto store the density matrices, and to include chemical shift evolution. 
Type Of Material Computer model/algorithm 
Year Produced 2023 
Provided To Others? Yes  
Impact n/a 
URL https://github.com/ThatPerson/Tourbillon_fastMAS
 
Description Characterisation of secondary structure of peptides and proteins 
Organisation AstraZeneca
Country United Kingdom 
Sector Private 
PI Contribution Development of NMR and FTIR methodology.
Collaborator Contribution Expertise on solution NMR and FTIR.
Impact No outcomes yet.
Start Year 2021
 
Description Collaboration on developing a solid-state NMR approach to analysing fungal cell wall of Schizosaccharomyces pombe 
Organisation University of Warwick
Department Warwick Medical School
Country United Kingdom 
Sector Academic/University 
PI Contribution This collaboration forms part of the research work of one PhD student based in NMR. We developed a method to 13C label the fungal cell culture of Schizosaccharomyces pombe. We carried out solid-state NMR on cell wall extractions and whole cells, quantifying the glycans observed in wild-type and mutant fungal strains.
Collaborator Contribution Our partners are experts in fungal biology and provide the basic protocol for growing fungal cell cultures, optmising the cell wall extraction process, understanding of mutation of the enzyme structure on function, and developing new mutants when needed. Our partners have provided the dedicated lab space required for fungal culture and cell wall extraction.
Impact multi-disciplinary: solid-state NMR, fungal genetics
Start Year 2022
 
Description Collaboration on developing and investigating a cell culture model of hypermobile Ehlers-Danlos syndrome 
Organisation University of Warwick
Department Warwick Medical School
Country United Kingdom 
Sector Academic/University 
PI Contribution We have developed a cell culture model to study the extracellular matrix obtained from cells from patients with Ehlers-Danlos syndrome by suggesting modifications to the cell culture protocol and carrying out solid-state NMR characterisation. We have advised and provided the protocol of how to generate 13C labelled samples for NMR.
Collaborator Contribution Our collaborators are Dr Darius Koester and Sabeeha Malek from the Centre for Mechanochemical Cell Biology at the Warwick Medical School. They are interested in studying the cell adhesion and cell biomechanics in the Ehlers-Danlos Syndromes (EDS) and Hypermobility Spectrum Disorders (HSD). The partners have provided expertise in mammalian cell culture and dedicated lab space. We have two PhD students, one of whom is jointly supervised between us and the partners.
Impact multi-disciplinary: NMR, cell biology, microscopy
Start Year 2022
 
Description Collaboration to investigate extracellular matrix changes in endometrial and myometrial samples 
Organisation University Hospitals Coventry and Warwickshire NHS Trust
Country United Kingdom 
Sector Academic/University 
PI Contribution Provide information on solid-state NMR analysis
Collaborator Contribution Provide decellularised samples originating from patients
Impact multi-disciplinary: solid-state NMR, reproductive medicine
Start Year 2023
 
Description Collaboration with pharmaceutical industry (600 MHz BBSRC--funded console, from 2021) 
Organisation AstraZeneca
Country United Kingdom 
Sector Private 
PI Contribution Solid-state NMR analysis of pharmaceutical compounds relevant to companies (AstraZeneca, GlaxoSmithKline, Pfizer) supported by PhD funding and an Innovate UK award (with AstraZeneca)
Collaborator Contribution co-supervision of PhD projects, research ideas
Impact publications are in preparation
Start Year 2021
 
Description Collaboration with pharmaceutical industry (600 MHz BBSRC--funded console, from 2021) 
Organisation GlaxoSmithKline (GSK)
Department GlaxoSmithKline, Stevenage
Country United Kingdom 
Sector Private 
PI Contribution Solid-state NMR analysis of pharmaceutical compounds relevant to companies (AstraZeneca, GlaxoSmithKline, Pfizer) supported by PhD funding and an Innovate UK award (with AstraZeneca)
Collaborator Contribution co-supervision of PhD projects, research ideas
Impact publications are in preparation
Start Year 2021
 
Description Collaboration with pharmaceutical industry (600 MHz BBSRC--funded console, from 2021) 
Organisation Pfizer Inc
Department Pfizer Ltd
Country United Kingdom 
Sector Private 
PI Contribution Solid-state NMR analysis of pharmaceutical compounds relevant to companies (AstraZeneca, GlaxoSmithKline, Pfizer) supported by PhD funding and an Innovate UK award (with AstraZeneca)
Collaborator Contribution co-supervision of PhD projects, research ideas
Impact publications are in preparation
Start Year 2021
 
Description Dynamics of b1AR receptor 
Organisation University of Basel
Department Biozentrum Basel
Country Switzerland 
Sector Academic/University 
PI Contribution We performed pilot study of feasibility of probing dynamics of b1AR receptor by solid-state NMR.
Collaborator Contribution Provided isotopically labelled samples.
Impact na
Start Year 2019
 
Description Ice dynamics in the presence of antifreeze molecules 
Organisation University of Warwick
Country United Kingdom 
Sector Academic/University 
PI Contribution Performed SSNMR experiments and analysis
Collaborator Contribution Provide samples and complementary experiments
Impact Elucidated molecular basis for antifreeze properties of PVA (publication under preparation).
Start Year 2018
 
Description Liquid-liquid phase separation in gene expression 
Organisation University of Cambridge
Department Department of Biochemistry
Country United Kingdom 
Sector Academic/University 
PI Contribution We perfrom SSNMR experiments.
Collaborator Contribution The collaborators supply samples.
Impact Currently we only have preliminary experiments suggesting feasibility of the approach.
Start Year 2021
 
Description Molecular modeling of systems involved in biosynthesis of natural products 
Organisation University of Warwick
Country United Kingdom 
Sector Academic/University 
PI Contribution Performed and analysed molecular dynamics simulations of various enzymes involved in natural products biosynthesis.
Collaborator Contribution Experimental data to contrast against the simulations.
Impact https://doi.org/10.1039/D1SC03478B
Start Year 2021
 
Description NMR studies of wood 
Organisation Scion
Country New Zealand 
Sector Public 
PI Contribution Run NMR experiments and analysed data.
Collaborator Contribution Provided 13C-enriched samples.
Impact na
Start Year 2020
 
Description Protein aggregation 
Organisation GlaxoSmithKline (GSK)
Country Global 
Sector Private 
PI Contribution We are developing NMR based methods for characterising protein aggregation.
Collaborator Contribution Exchange of expertise and help with identifying research targets.
Impact Currently only preliminary results obtained.
Start Year 2020
 
Description Biological solid state NMR tutorial at the Alpine Conference on Magnetic Resonance in Solids 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact About 50 postgraduate students and NMR spectroscopists participated in a general tutorial on biological solid-state NMR. The tutorial was aimed both at people in the field and outside of the field.
Year(s) Of Engagement Activity 2023
URL https://alpine-conference.org/
 
Description In2science UK placement of school students 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact A small group of students from Midlands with disadvantaged backgrounds joined the NMR lab for one week as a work placement. They observed and participated in experimental work on the NMR magnets, and had ample one-to-one interactions and discussions with academics, postgraduate students, and postdocs. Nearly all the students go on to study science subjects at university.
Year(s) Of Engagement Activity 2022
URL https://in2scienceuk.org/
 
Description Poster Presentation at the Houses of Parliament at STEM for Britain 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Policymakers/politicians
Results and Impact STEM for Britain is a poster presentation for early-career research scientists to showcase their work at the Houses of Parliament, organised by the Parliamentary & Scientific Committee. It aims to give members of both Houses of Parliament an insight into the research work being undertaken in UK universities by early-career researchers.
In 2025 Ananya Singh presented her poster titled "Applying Solid-state NMR Spectroscopy to Investigate the Molecular Architecture in Fungi" in the Physics session on 11 March.
Year(s) Of Engagement Activity 2025
URL https://stemforbritain.org.uk/
 
Description Work experience placement for Lower 6th Form Students (Department of Physics) 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Schools
Results and Impact A group of work experience student visited the NMR lab and also attended a talk given by academics, postdocs, and PhD students on the basic science underlying the magnets. The students asked questions and we had a discussion. Some of the students go on to study a science subject at university.
Year(s) Of Engagement Activity 2022,2023,2024
URL https://warwick.ac.uk/fac/sci/physics/intranet/work_experience