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Ben Davis Group

@bendavisgroup.bsky.social
57 followers 5 following 28 posts

Chemical Biology at the University of Oxford and the Rosalind Franklin Institute "There is hope in honest error." bendavis.group orcid.org/0000-0002-5056-407X scholar.google.co.uk/citations?hl=e…

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Ben Davis Group @bendavisgroup.bsky.social · 28/08/2026
doi.org/10.1098/rsob...
doi.org
Structural insights into the polytopic Escherichia coli phosphoglycosyl transferase WbaP
Abstract. Host–pathogen interactions frequently depend on key components of the bacterial cell surface, such as capsules and lipopolysaccharides in Gram-ne
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Ben Davis Group @bendavisgroup.bsky.social · 10/08/2026
www.biorxiv.org/content/10.6...
biorxiv.org
Nanopore-based sequence deconvolution of diverse glycosaminoglycans
Glycosaminoglycan (GAG) polysaccharides play vital roles in animal physiology and disease. Their diverse and intricate patterns of sulfation and epimerization endow them with an extensive potential to...
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Ben Davis Group @bendavisgroup.bsky.social · 11/07/2026
BGD has been awarded the Yamada-Koga Prize for 2026. www.chem-station.com/tag/yamada-k...
chem-station.com
Yamada-Koga Prizeに関する記事一覧
化学ポータルサイト
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Ben Davis Group @bendavisgroup.bsky.social · 16/06/2026
www.biorxiv.org/content/10.6...
biorxiv.org
In situ molecular architecture of PML bodies reveals open-state columnar trinucleosome assemblies within a porous, chromatin-permissive interior
Genome function in the nucleus is organised through membrane-less compartments enriched with specific proteins and nucleic acids. Promyelocytic leukemia (PML) bodies regulate telomere maintenance and ...
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Ben Davis Group @bendavisgroup.bsky.social · 24/03/2026
www.pnas.org/doi/10.1073/...
pnas.org
Live-cell 3D-SIM of Rift Valley fever virus NSs filaments reveals a polygon web architecture | PNAS
A defining feature of Rift Valley fever virus (RVFV) is the incorporation of the NSs protein into large filamentous assemblies inside infected nucl...
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Ben Davis Group @bendavisgroup.bsky.social · 21/02/2026
www.nature.com/articles/s41...
nature.com
Application of a sunlight-switched sugar signal increases wheat yield in the field - Nature Biotechnology
Crop yield improvement has plateaued in the past three decades, owing largely to genetic bottlenecks in the germplasm of staple food crops. We used a chemical intervention method that increases yield ...
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Ben Davis Group @bendavisgroup.bsky.social · 07/01/2026
doi.org/10.1038/s415...
doi.org
Biocompatible ligand balancing in transition metal coordination enables benign in-cell protein arylation - Nature Chemistry
The perceived toxicity of organometallic reagents has limited their use in living systems. Now it has been shown that balancing flexible chelation with biocompatible ligands without precluding chemica...
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Ben Davis Group @bendavisgroup.bsky.social · 07/01/2026
doi.org/10.1038/s415...
doi.org
Engineered nanobodies facilitate cryo-EM studies of small proteins - Nature Reviews Molecular Cell Biology
In this Tools of the Trade article, Yi and Mamalis (Gilbert and Davis labs) discuss the development of Di-Gembodies, innovative constructs designed to overcome key challenges in applying cryo-electron...
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Ben Davis Group @bendavisgroup.bsky.social · 27/12/2025
pubs.acs.org/doi/10.1021/...
pubs.acs.org
Mapping Vibronic Dynamics of Ultrafast Intersystem Crossing in an Earth-Abundant Ligand-Field Excited Complex
Intersystem crossing (ISC) is a central nonradiative pathway in transition-metal complexes, critically shaping their behavior in photocatalysis and optoelectronics. In 3d metal systems, ligand-field (LF, d–d) excited states are especially important, yet the mechanisms governing their ISC remain obscure because LF transitions are commonly masked by intense metal-to-ligand charge-transfer (MLCT) bands. This knowledge gap is significant, as LF states frequently participate in deactivation channels and directly influence the photochemical reactivity. Here, we focus on unraveling the ultrafast ISC dynamics in a carefully chosen model system with a simplified electronic structure: cobalt(III)-acetylacetonate, ([Co(acac)3]), a d6 low-spin complex. Upon selective 1A1 → 1T1 ligand-field excitation promoting a t2g → eg * electron, heterodyne-detected transient grating measurements with ∼10 fs pulses reveal vibrational coherences decaying in ∼50 fs, matching ISC dynamics. Fourier analysis reveals both low- and high-frequency vibrational modes associated with Co–O stretching and Co–O–C bending that actively mediate the spin-state transition. Complementary two-dimensional electronic spectroscopy (2DES) disentangles overlapping signals and localizes vibrational activity near the 1T1 excited-state absorption. Density functional theory (DFT) and GPU-accelerated hierarchy equation of motion (HEOM) calculations confirm that vibronic coupling, in concert with spin–orbit coupling (SOC), enables rapid singlet-to-triplet conversion via dynamic modulation of excited-state energies and reorganization along key nuclear coordinates. These results reveal that following LF excitation vibronic coupling plays an important role in reshaping excited-state potential energy surfaces and facilitating ISC in systems where SOC alone is weak. This work establishes a mechanistic foundation for understanding and controlling excited-state pathways in LF-dominated 3d transition-metal complexes.
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Ben Davis Group @bendavisgroup.bsky.social · 05/11/2025
iwyp.org/wp-content/u...
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Ben Davis Group @bendavisgroup.bsky.social · 29/10/2025
doi.org/10.1021/acsc...
doi.org
Gluebodies Offer a Route To Improve Crystal Reliability and Diversity through Transferable Nanobody Mutations That Introduce Constitutive Close Contacts
Design of modular, transferable protein assemblies has broad applicability and in structural biology could help with the ever-troublesome crystallization bottleneck, including finding robustly behaved...
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Ben Davis Group @bendavisgroup.bsky.social · 25/10/2025
www.biorxiv.org/content/10.1...
biorxiv.org
High-throughput discovery of a [4+3] dearomative cycloaddition enables dual photochemical-photophysical perturbative probing of protein function
Proteins exist in multiple conformations or states, often associated with different functional capacities. The ability to selectively identify and study these states is crucial for under-standing the ...
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Ben Davis Group @bendavisgroup.bsky.social · 15/08/2025
www.nature.com/articles/s41...
nature.com
Covalently constrained ‘Di-Gembodies’ enable parallel structure solutions by cryo-EM - Nature Chemical Biology
Disulfide-based dimerization of modified identical and heterologous nanobody scaffolds enables higher-order assembly for high-resolution cryo-electron microscopy structure determination that is widely...
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Ben Davis Group @bendavisgroup.bsky.social · 13/08/2025
www.biorxiv.org/content/10.1...
biorxiv.org
Biomolecular tracking by FIRESCAPE reveals distinct modes of clearance, damage induction and cellular uptake for extracellular histone H3
In attempting to observe the behaviour of a protein of interest in vivo, akin to other observer effects, current techniques require modifications or interventions that inherently alter the protein or ...
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Ben Davis Group @bendavisgroup.bsky.social · 08/08/2025
www.nature.com/articles/s41...
nature.com
Seedless: on-the-fly pulse calculation for NMR experiments - Nature Communications
The authors develop a computational tool to design NMR pulses, based on the GRadient Assisted Pulse Engineering approach, that can calculate optimal pulse shapes on the fly during the measurements, to...
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Ben Davis Group @bendavisgroup.bsky.social · 06/08/2025
BGD has been awarded the ICS's Barry Cohen Award for Excellence in Medicinal Chemistry for 2025. www.chemistry.org.il/prizes-page/...
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Ben Davis Group @bendavisgroup.bsky.social · 06/08/2025
www.biorxiv.org/content/10.1...
biorxiv.org
Live-cell 3D-SIM of Rift Valley fever virus NSs filaments reveals a polygonal web architecture
A defining feature of Rift Valley fever virus (RVFV) is the incorporation of the NSs protein into large filamentous assemblies inside infected nuclei [1][1], as judged from fixed specimens. To gain in...
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Ben Davis Group @bendavisgroup.bsky.social · 01/07/2025
www.nature.com/articles/s41...
nature.com
Thio-NHS esters are non-innocent protein acylating reagents - Nature Communications
N-Hydroxysuccinimide (NHS)-ester derivatives are one of the most widely used acylating agents. In this work, the authors report that ring-opening reaction of the succinimide to afford N-succinamide de...
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Ben Davis Group @bendavisgroup.bsky.social · 26/06/2025
www.nature.com/articles/s41...
nature.com
Small-molecule dissolution of stress granules by redox modulation benefits ALS models - Nature Chemical Biology
Uechi et al. found that a small-molecule lipoamide dissolves stress granules (SGs) by targeting SFPQ, a redox-sensitive disordered SG protein, alleviating pathological phenotypes caused by amyotrophic...
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Ben Davis Group @bendavisgroup.bsky.social · 26/06/2025
www.nature.com/articles/s41...
nature.com
Membrane-permeable trehalose 6-phosphate precursor spray increases wheat yields in field trials - Nature Biotechnology
A sunlight-activated chemical spray increases wheat yield in field trials across rainfall conditions.
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Ben Davis Group @bendavisgroup.bsky.social · 03/05/2025
www.ox.ac.uk/news/2025-04...
ox.ac.uk
New biostimulant treatment significantly boosts wheat yields, field
A novel biostimulant could deliver increased wheat yields of up to 12%, according to researchers from Oxford University, Rothamsted, and the Rosalind Franklin Institute in a long-term study published
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Ben Davis Group @bendavisgroup.bsky.social · 29/04/2025
www.bbc.co.uk/programmes/m...
bbc.co.uk
BBC Radio 4 - Farming Today, 30/4/25 Welsh community food strategy, British-grown pulses, biostimulant for wheat
New community food strategy for Wales.
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Ben Davis Group @bendavisgroup.bsky.social · 08/04/2025
Addressing NHS chemistry: Efficient quenching of excess TMT reagent and reversing TMT-over labelling in proteomic samples by methylamine, Mol Cell Proteomics, 2025, 24(4), 100948, doi.org/10.1016/j.mc...
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Ben Davis Group @bendavisgroup.bsky.social · 31/03/2025
BGD has been awarded the ACS's Hudson Award for 2025. acscarb.org/awards/hudso...
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Ben Davis Group @bendavisgroup.bsky.social · 01/03/2025
Isostere 18F-protein post-translational editing enables dynamic tracking of neurodegeneration biomarkers, bioRxiv 2025.01.26.634877; doi: doi.org/10.1101/2025...
doi.org
Isostere 18F-protein post-translational editing enables dynamic tracking of neurodegeneration biomarkers
The neurofilament light chain protein (NfL) is a suggested general marker for neuronal loss. Its release from brain parenchyma into cerebral spinal fluid, and presumed detection in blood has seen it e...
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Ben Davis Group @bendavisgroup.bsky.social · 01/03/2025
Lipid-Modulated, Graduated Inhibition of N-Glycosylation Pathway Priming Suggests Wide Tolerance of ER Proteostasis to Stress, ACS Cent. Sci., 2025, 11, 107-115, doi.org/10.1021/acsc...
doi.org
Lipid-Modulated, Graduated Inhibition of N-Glycosylation Pathway Priming Suggests Wide Tolerance of ER Proteostasis to Stress
Protein N-glycosylation is a cotranslational modification that takes place in the endoplasmic reticulum (ER). Disruption of this process can result in accumulation of misfolded proteins, known as ER s...
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Ben Davis Group @bendavisgroup.bsky.social · 01/03/2025
Structure of WzxE the Lipid III Flippase for Enterobacterial Common Antigen Polysaccharide, Open. Biol., 2025, 15, 240310, doi.org/10.1098/rsob...
doi.org
Structure of WzxE the lipid III flippase for Enterobacterial Common Antigen polysaccharide | Open Biology
The enterobacterial common antigen (ECA) is conserved in Gram-negative bacteria of the Enterobacterales order although its function is debated. ECA biogenesis depends on the Wzx/Wzy-dependent strategy...
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Ben Davis Group @bendavisgroup.bsky.social · 01/03/2025
Start with some...Thoughts for the Future, Nature Chemical Biology, 2025, 21, 6-15; doi.org/10.1038/s415...
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