Randy Read 🇨🇦🇬🇧
@randyjread.bsky.social
Interested in likelihood-based methods for structural biology. Contributor to Phenix, CCP4 and CCP-EM.
Based at CIMR, University of Cambridge.
Posts usually about science.
Based at CIMR, University of Cambridge.
Posts usually about science.
Great collaborative environment with lots of exciting work!
Our mission is to determine the molecular mechanisms of disease in order to advance human health.
Want to join our vibrant and diverse research institute as a funded PhD or taught MPhil student? Apply by the 2nd December 2025.
More information here: www.cimr.cam.ac.uk/postgraduate...
Want to join our vibrant and diverse research institute as a funded PhD or taught MPhil student? Apply by the 2nd December 2025.
More information here: www.cimr.cam.ac.uk/postgraduate...
November 6, 2025 at 11:04 AM
Great collaborative environment with lots of exciting work!
Reposted by Randy Read 🇨🇦🇬🇧
Our November issue is available at journals.iucr.org/d/issues/202...
On the cover: recent studies demonstrate that the range of samples suitable for cryo-EM single-particle analysis is expanding towards increasingly more native samples. Read the review at shorturl.at/mitjg
On the cover: recent studies demonstrate that the range of samples suitable for cryo-EM single-particle analysis is expanding towards increasingly more native samples. Read the review at shorturl.at/mitjg
November 5, 2025 at 1:29 PM
Our November issue is available at journals.iucr.org/d/issues/202...
On the cover: recent studies demonstrate that the range of samples suitable for cryo-EM single-particle analysis is expanding towards increasingly more native samples. Read the review at shorturl.at/mitjg
On the cover: recent studies demonstrate that the range of samples suitable for cryo-EM single-particle analysis is expanding towards increasingly more native samples. Read the review at shorturl.at/mitjg
If you missed the live presentation with
@alisiafadini.bsky.social and @minhuanli.bsky.social introducing ROCKET, you can watch the video on SBGrid's YouTube channel.
More here: buff.ly/nsA12eg
#SBGrid #Webinars
@alisiafadini.bsky.social and @minhuanli.bsky.social introducing ROCKET, you can watch the video on SBGrid's YouTube channel.
More here: buff.ly/nsA12eg
#SBGrid #Webinars
ROCKET
SBGrid webinars are hosted with partial support from the NIH R25 Continuing Education for Structural Biology Mentors #GM151273, in collaboration with Co-PI Jamaine Davis of Belmont University.…
youtu.be
November 4, 2025 at 5:30 PM
Reposted by Randy Read 🇨🇦🇬🇧
Don’t forget to apply for the 2026 Erice Course! Deadline is 30th November 2025. Apologies if earlier today I wrote Dec 15th.
Erice Structural Biology Course 2026 (29 May–6 Jun): apply! Train in Cryo-EM, Cryo-ET & ML to study macromolecular assemblies in cells. Hands-on + theory for next-gen structural cell biology.
🔗 erice2026.azuleon.org/application....
#CryoEM #CryoET #MachineLearning #StructuralBiology #CellBiology
🔗 erice2026.azuleon.org/application....
#CryoEM #CryoET #MachineLearning #StructuralBiology #CellBiology
International School of Crystallography :: APPLICATION
The International School of Crystallography - held in Erice, Italy, since 1974
erice2026.azuleon.org
November 2, 2025 at 9:42 PM
Don’t forget to apply for the 2026 Erice Course! Deadline is 30th November 2025. Apologies if earlier today I wrote Dec 15th.
Reposted by Randy Read 🇨🇦🇬🇧
OpenFold3-preview (OF3p) is out: a sneak peek of our AF3-based structure prediction model. Our aim for OF3 is full AF3-parity for every modality. We now believe we have a clear path towards this goal and are releasing OF3p to enable building in the OF3 ecosystem. More👇
October 28, 2025 at 6:30 PM
OpenFold3-preview (OF3p) is out: a sneak peek of our AF3-based structure prediction model. Our aim for OF3 is full AF3-parity for every modality. We now believe we have a clear path towards this goal and are releasing OF3p to enable building in the OF3 ecosystem. More👇
There are some great new results!
ROCKET's webinar on cryo-EM+crystal data-guided protein structure prediction is now online 🚀: www.youtube.com/watch?v=_29C...
Thank you to the many of you who attended and stayed overtime for more Q&A, and especially to @sbgrid.bsky.social for hosting us last week!
Thank you to the many of you who attended and stayed overtime for more Q&A, and especially to @sbgrid.bsky.social for hosting us last week!
ROCKET
YouTube video by SBGrid Consortium
www.youtube.com
October 20, 2025 at 6:43 PM
There are some great new results!
Reposted by Randy Read 🇨🇦🇬🇧
ROCKET's webinar on cryo-EM+crystal data-guided protein structure prediction is now online 🚀: www.youtube.com/watch?v=_29C...
Thank you to the many of you who attended and stayed overtime for more Q&A, and especially to @sbgrid.bsky.social for hosting us last week!
Thank you to the many of you who attended and stayed overtime for more Q&A, and especially to @sbgrid.bsky.social for hosting us last week!
ROCKET
YouTube video by SBGrid Consortium
www.youtube.com
October 20, 2025 at 3:48 PM
ROCKET's webinar on cryo-EM+crystal data-guided protein structure prediction is now online 🚀: www.youtube.com/watch?v=_29C...
Thank you to the many of you who attended and stayed overtime for more Q&A, and especially to @sbgrid.bsky.social for hosting us last week!
Thank you to the many of you who attended and stayed overtime for more Q&A, and especially to @sbgrid.bsky.social for hosting us last week!
Reposted by Randy Read 🇨🇦🇬🇧
Major modes of behavior within low-pLDDT regions were identified through a survey of human proteome predictions provided by the AlphaFold Protein Structure Database #AlphaFold2 #StructurePrediction #ConditionalFolding doi.org/10.1107/S205...
October 20, 2025 at 12:43 PM
Major modes of behavior within low-pLDDT regions were identified through a survey of human proteome predictions provided by the AlphaFold Protein Structure Database #AlphaFold2 #StructurePrediction #ConditionalFolding doi.org/10.1107/S205...
This is reminiscent of the subset of bacterial toxins that hijack retrograde translocation and the ERAD machinery to get into the cytosol. Their active, translocated subunits are also lysine deserts!
The proteasome-substrate-shuttle protein UBQLN2 contains—like other quality control system proteins—a long region devoid of lysine (a lysine desert)
Martin Grønbæk-Thygesen (from @rhp-lab.bsky.social) et al show that introducing K here causes ubiquitylation and degradation
doi.org/10.1101/2025...
Martin Grønbæk-Thygesen (from @rhp-lab.bsky.social) et al show that introducing K here causes ubiquitylation and degradation
doi.org/10.1101/2025...
October 8, 2025 at 6:44 AM
This is reminiscent of the subset of bacterial toxins that hijack retrograde translocation and the ERAD machinery to get into the cytosol. Their active, translocated subunits are also lysine deserts!
Christopher did a great job on this cover!
October issue is now available! journals.iucr.org/d/issues/202...
The cover highlights the article on categorizing prediction modes within low-pLDDT regions of AlphaFold2 structures from the Richardson lab @duke-university.bsky.social : doi.org/10.1107/S205...
Image credit: Chistopher Williams
The cover highlights the article on categorizing prediction modes within low-pLDDT regions of AlphaFold2 structures from the Richardson lab @duke-university.bsky.social : doi.org/10.1107/S205...
Image credit: Chistopher Williams
October 2, 2025 at 4:42 PM
Christopher did a great job on this cover!
I’ve frequently posted the version revised in response to referee comments to bioRxiv, on the assumption that anything up to and including the author accepted version is allowed, though not to Nature family. I wonder if @ritastrack.bsky.social could comment?
Still technically not allowed by @nature.com family journals though right?
September 25, 2025 at 6:17 AM
I’ve frequently posted the version revised in response to referee comments to bioRxiv, on the assumption that anything up to and including the author accepted version is allowed, though not to Nature family. I wonder if @ritastrack.bsky.social could comment?
Well deserved! I’ve always been deeply impressed by David’s insights into a wide variety of areas!
September 15, 2025 at 4:29 PM
Well deserved! I’ve always been deeply impressed by David’s insights into a wide variety of areas!
This looks really impressive!
This one is a bit of a departure from the usual and definitely a work in progress!
We found that by using ab initio reconstruction at very high res, in very small steps, we could crack some small structures that had eluded us - e.g. 39kDa iPKAc (EMPIAR-10252), below.
Read on for details... 1/x
We found that by using ab initio reconstruction at very high res, in very small steps, we could crack some small structures that had eluded us - e.g. 39kDa iPKAc (EMPIAR-10252), below.
Read on for details... 1/x
September 13, 2025 at 7:39 PM
This looks really impressive!
These are fantastic courses in an amazing location!
September 9, 2025 at 1:50 PM
These are fantastic courses in an amazing location!
Reposted by Randy Read 🇨🇦🇬🇧
Dear scientific community,
I am looking for two postdoctoral structural biologists to join my group at the Department of Biochemistry, University of Oxford.
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
I am looking for two postdoctoral structural biologists to join my group at the Department of Biochemistry, University of Oxford.
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
September 8, 2025 at 3:16 PM
Dear scientific community,
I am looking for two postdoctoral structural biologists to join my group at the Department of Biochemistry, University of Oxford.
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
I am looking for two postdoctoral structural biologists to join my group at the Department of Biochemistry, University of Oxford.
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
Reposted by Randy Read 🇨🇦🇬🇧
The September issue is here! tinyurl.com/bdeby9au
The cover highlights XFBLD-Platform, a crystallographic fragment-screening platform at Shanghai Synchrotron Radiation Facility. Find out more at tinyurl.com/36rzxazr
The cover highlights XFBLD-Platform, a crystallographic fragment-screening platform at Shanghai Synchrotron Radiation Facility. Find out more at tinyurl.com/36rzxazr
September 3, 2025 at 1:56 PM
The September issue is here! tinyurl.com/bdeby9au
The cover highlights XFBLD-Platform, a crystallographic fragment-screening platform at Shanghai Synchrotron Radiation Facility. Find out more at tinyurl.com/36rzxazr
The cover highlights XFBLD-Platform, a crystallographic fragment-screening platform at Shanghai Synchrotron Radiation Facility. Find out more at tinyurl.com/36rzxazr
This is well worth your time!
Alisia and Minhuan are both rising stars!
Alisia and Minhuan are both rising stars!
We'll cover our latest work on low resolution applications, a run-through of our codebase, and tutorials of how to run ROCKET on your own data. Join if you're interested!! 🚀
Our monthly software webinars will resume in October with @alisiafadini.bsky.social and @minhuanli.bsky.social covering AlphaFold as a Prior: Guiding Protein Structure Prediction Using Experimental Data with ROCKET.
Tuesday, October 14, 2025 at 12:00pm ET
Register here: buff.ly/uLlQGVr
#SBGrid
Tuesday, October 14, 2025 at 12:00pm ET
Register here: buff.ly/uLlQGVr
#SBGrid
September 2, 2025 at 6:50 PM
This is well worth your time!
Alisia and Minhuan are both rising stars!
Alisia and Minhuan are both rising stars!
Reposted by Randy Read 🇨🇦🇬🇧
"Bluesky now platform of choice for science community. It's not just you. Survey says: "Twitter sucks now and all the cool kids are moving to Bluesky" arstechnica.com/science/2025...
Bluesky now platform of choice for science community
It’s not just you. Survey says: “Twitter sucks now and all the cool kids are moving to Bluesky”…
arstechnica.com
August 27, 2025 at 3:15 PM
"Bluesky now platform of choice for science community. It's not just you. Survey says: "Twitter sucks now and all the cool kids are moving to Bluesky" arstechnica.com/science/2025...
Reposted by Randy Read 🇨🇦🇬🇧
The August issue is out! journals.iucr.org/d/issues/202...
On the cover: ~15% of the ligands in a high-resolution set of FABP structures had a different chemical composition to that expected from the starting materials or final synthesis product. Find out more at doi.org/10.1107/S205...
On the cover: ~15% of the ligands in a high-resolution set of FABP structures had a different chemical composition to that expected from the starting materials or final synthesis product. Find out more at doi.org/10.1107/S205...
August 5, 2025 at 1:54 PM
The August issue is out! journals.iucr.org/d/issues/202...
On the cover: ~15% of the ligands in a high-resolution set of FABP structures had a different chemical composition to that expected from the starting materials or final synthesis product. Find out more at doi.org/10.1107/S205...
On the cover: ~15% of the ligands in a high-resolution set of FABP structures had a different chemical composition to that expected from the starting materials or final synthesis product. Find out more at doi.org/10.1107/S205...
Reposted by Randy Read 🇨🇦🇬🇧
Happy to see this out, great work from Niels, combining kinetic analysis, cryoEM and an unexpected gain-of-function mutant, nice work from master students Jan and Nina, from Kaustav and from Alex for the kinetics
@oncodeinstitute.bsky.social,
@nkinl.bsky.social
@oncodeinstitute.bsky.social,
@nkinl.bsky.social
I'm very proud that our paper, and with that the main project of my PhD, has just been published by @natcomms.nature.com! 🎉
Here, we reveal the unique, molecular mechanism by which USP1/UAF1 cleaves ubiquitin chains on PCNA, which may direct DNA damage tolerance.
doi.org/10.1038/s414...
Here, we reveal the unique, molecular mechanism by which USP1/UAF1 cleaves ubiquitin chains on PCNA, which may direct DNA damage tolerance.
doi.org/10.1038/s414...
USP1/UAF1 targets polyubiquitinated PCNA with an exo-cleavage mechanism that can temporarily enrich for monoubiquitinated PCNA - Nature Communications
DNA damage tolerance is regulated by ubiquitination of PCNA. Here, the authors present kinetic and structural studies showing that USP1/UAF1 prefers trimming K63- and K48-ubiquitin chains down over cl...
doi.org
July 31, 2025 at 12:38 PM
Happy to see this out, great work from Niels, combining kinetic analysis, cryoEM and an unexpected gain-of-function mutant, nice work from master students Jan and Nina, from Kaustav and from Alex for the kinetics
@oncodeinstitute.bsky.social,
@nkinl.bsky.social
@oncodeinstitute.bsky.social,
@nkinl.bsky.social
I have two fond memories of Rolf. In the late 1980s, when I was just becoming independent, he asked for a copy of my program, SIGMAA. I said sure, send me a mag tape, and he said no, I have a budget for this (Hoechst era) and offered several thousand dollars. Travel budget sorted for a couple years!
July 29, 2025 at 12:24 PM
I have two fond memories of Rolf. In the late 1980s, when I was just becoming independent, he asked for a copy of my program, SIGMAA. I said sure, send me a mag tape, and he said no, I have a budget for this (Hoechst era) and offered several thousand dollars. Travel budget sorted for a couple years!
Pipe stems (Dutch)
Happy World Rain Day! It’s raining…
– Cats and dogs (English)
– Old ladies and sticks (Welsh)
– Like a pissing cow (French)
– As from Esteri’s ass (Finnish)
– Penguins headfirst (Uruguayan Spanish)
– Pilot whales (Faroese)
– Chair legs (Greek)
– Wheelbarrows (Czech)
– Men (hallelujah)
– Cats and dogs (English)
– Old ladies and sticks (Welsh)
– Like a pissing cow (French)
– As from Esteri’s ass (Finnish)
– Penguins headfirst (Uruguayan Spanish)
– Pilot whales (Faroese)
– Chair legs (Greek)
– Wheelbarrows (Czech)
– Men (hallelujah)
July 29, 2025 at 10:42 AM
Pipe stems (Dutch)
Reposted by Randy Read 🇨🇦🇬🇧
Elspeth F. Garman: Perspective on a large-scale ligand structure characterization ... ##IUCrhttps://journals.iucr.org/paper?S2059798325006631
Perspective on a large-scale ligand structure characterization
An introduction to a set of three related papers in this issue describing 216 ligand-bound fatty acid-binding protein structure determinations and the pitfalls that can arise in such a study.
journals.iucr.org
July 29, 2025 at 12:00 AM
Elspeth F. Garman: Perspective on a large-scale ligand structure characterization ... ##IUCrhttps://journals.iucr.org/paper?S2059798325006631