Ray Berkeley
@ray-berkeley.bsky.social
📤 106
📥 198
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Postdoc
@scripps.edu
interested in protein-protein interactions and all things undruggable.
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Ray Berkeley
Brian Cook
17 days ago
1) The Herzik lab is excited to announce our newest preprint in collaboration with the Grotjahn lab! We have developed a surfactant cocktail that seeks to overcome one of the more nefarious problems in
#cryoEM
, Air-water interface (AWI)-induced damage and preferred orientation (PO).
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Ray Berkeley
Danielle Grotjahn
17 days ago
Fun collaboration with the Herzik lab! Very cool to see
#TeamTomo
+ STA directly capture the effects of the AWI at the single-particle level. we know it’s happening, but it’s striking to see it so clearly!
add a skeleton here at some point
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Ray Berkeley
Carl T. Bergstrom
2 months ago
So initial experiments with Open AI's vibe-coding science tool Prism are going about as well as expected.
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Ray Berkeley
Dan Nomura
4 months ago
Excited to highlight our latest bioRxiv led by grad student Zoe Duong and Qian Shao. We report a chemistry-centric, chemoproteomics-enabled strategy to discover non-degradative molecular glues for transcriptional rewiring.
🔗
www.biorxiv.org/content/10.6...
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Discovery of Non-Degradative Covalent Molecular Glues for Transcriptional Reprogramming
Transcriptional reprogramming through induced proximity has emerged as a powerful strategy for modulating the expression of oncogenic and tumor-suppressive genes. Inspired by transcriptional reprogram...
https://www.biorxiv.org/content/10.64898/2025.12.12.694031v1
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Ray Berkeley
Itay Budin
7 months ago
Very excited to share new work out today in
@natchembio.nature.com
on a new approach - FACES - for selectively imaging of phospholipids and other biomolecules at spatial resolutions down to individual membrane leaflets (1/n)
www.nature.com/articles/s41...
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Leaflet-specific phospholipid imaging using genetically encoded proximity sensors - Nature Chemical Biology
An approach combining bioorthogonal chemistry with genetically encoded fluorogen-activating proteins enables subcellular imaging of phospholipids and glycans, as well as the visualization of lipid tra...
https://www.nature.com/articles/s41589-025-02021-z
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Ray Berkeley
Alex Guseman
8 months ago
Thrilled to share this manuscript from my lab where we looked at how glycopolymers that compose the glycocalyx influence protein folding and protein-protein interactions via macromolecular crowding. TLDR: The Glycocalyx stabilizes protein folding and PPIs
www.biorxiv.org/content/10.1...
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Glycopolymers stabilize protein folding and protein-protein interactions via enthalpic interactions
Macromolecular crowding is ubiquitous to physiological environments, perturbing the thermodynamics and kinetics of proteins via excluded volume and nonspecific chemical interactions. While crowding ha...
https://www.biorxiv.org/content/10.1101/2025.08.11.669795v1
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Ray Berkeley
Chris Parker
8 months ago
Happy to share our contribution to this special issue dedicated to "Proximity-Induced Chemical Biology". We provide our take on targeted protein acetylation. Nice work Wesley and Roy!
pubs.acs.org/doi/10.1021/...
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Targeted Protein Acetylation Through Chemically Induced Proximity
ConspectusProtein acetylation is a pervasive and reversible post-translational modification (PTM) that impacts various protein features including stability, localization, and interactions and regulate...
https://pubs.acs.org/doi/10.1021/acs.accounts.5c00326
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Ray Berkeley
10 months ago
New preprint from Daniel Du
@fitzpatricklab.bsky.social
shows
#femtosecond
light pulses can lens electron beams, promising higher contrast in
#cryoET
and better aberration correction in
#cryoEM
tinyurl.com/257sw7j9
Experiments made possible by support from
@cziscience.bsky.social
#ImagingTheFuture
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Terra Sztain
about 1 year ago
This could be a good time to mention we are looking for a new Lab Manager / Postdoc for the biochemistry lab with expertise protein expression, purification, and protein NMR. Details to follow.
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Ray Berkeley
Chemjobber
about 1 year ago
Mass spec/proteomics chempostdoc in the Ferguson lab, UCSD, La Jolla, CA chemsky 🧪 ⚗️
jobrxiv.org/job/universi...
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Research Scientist - Mass spectrometry - Ferguson Lab
Post a job in 3min, or find thousands of job offers like this one at jobRxiv!
https://jobrxiv.org/job/university-of-california-san-diego-27778-research-scientist-mass-spectrometry-ferguson-lab/
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Ray Berkeley
Nature
about 1 year ago
Nature research paper: Structural basis for the conformational protection of nitrogenase from O2
https://go.nature.com/4aiD344
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Structural basis for the conformational protection of nitrogenase from O2 - Nature
Cryo-electron microscopy of Azotobacter vinelandii FeSII–nitrogenase reveals a core complex of molybdenum–iron proteins (MoFePs), iron proteins (FePs) and FeSII, in which FeSII mediates interactions with MoFeP and FeP to position their FeS clusters in catalytically inactive but O2-protected states.
https://go.nature.com/4aiD344
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Awesome work from Sarah,
@bcryo.bsky.social
and friends in the Herzik Lab! It was cool to see this come together in such a short time.
add a skeleton here at some point
over 1 year ago
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Awesome application of biorthogonal chemistry to trap non-ribosomal peptide synthetase complexes for cryo-EM, out yesterday from the Burkart Lab
@ucsandiego.bsky.social
www.nature.com/articles/s41...
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Crosslinking intermodular condensation in non-ribosomal peptide biosynthesis - Nature
Structural studies of tyrocidine synthetase using site-selective crosslinking probes to link condensation domains with carrier protein substrates define key interactions and molecular mechanisms of no...
https://www.nature.com/articles/s41586-024-08306-y
over 1 year ago
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What do they keep in here…
over 1 year ago
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