Colin Jackson
@cjjackson.bsky.social
Reposted by Colin Jackson
Crystal structure of malaria parasite fusogen PfHAP2 domain 3 and nanobodies - unsolved mysteries galore! 🦟🦙💎
PfHAP2 is part of family of ancient fusogens involved in fertilisation processes in algae, plants to malaria parasites.
Check out the first crystal structure of PfHAP2 D3 and nanobodies
PfHAP2 is part of family of ancient fusogens involved in fertilisation processes in algae, plants to malaria parasites.
Check out the first crystal structure of PfHAP2 D3 and nanobodies
Crystal structure and nanobodies against domain 3 of the malaria parasite fusogen Plasmodium falciparum HAP2
Malaria parasites are transmitted to humans through a bite from an infected female Anopheles mosquito. Within the mosquito midgut, malaria parasite gametes are activated and undergo fertilisation. If ...
portlandpress.com
February 2, 2026 at 10:51 PM
Crystal structure of malaria parasite fusogen PfHAP2 domain 3 and nanobodies - unsolved mysteries galore! 🦟🦙💎
PfHAP2 is part of family of ancient fusogens involved in fertilisation processes in algae, plants to malaria parasites.
Check out the first crystal structure of PfHAP2 D3 and nanobodies
PfHAP2 is part of family of ancient fusogens involved in fertilisation processes in algae, plants to malaria parasites.
Check out the first crystal structure of PfHAP2 D3 and nanobodies
Reposted by Colin Jackson
Beginning 2026 with a flipping good paper🚀 OSCA/TMEM63 proteins do double duty: they’re ion channels and mechanically activated lipid scramblases helping reshape membranes and survive mechanical stress. 👏 @yiechanglin.bsky.social @charlesdcox.bsky.social doi.org/10.1038/s414...
February 2, 2026 at 10:30 PM
Beginning 2026 with a flipping good paper🚀 OSCA/TMEM63 proteins do double duty: they’re ion channels and mechanically activated lipid scramblases helping reshape membranes and survive mechanical stress. 👏 @yiechanglin.bsky.social @charlesdcox.bsky.social doi.org/10.1038/s414...
Reposted by Colin Jackson
Pfs48/45 nanobodies block malaria parasite transmission 🦟 and crystal structures provide structural insight to how they bind 💎
Pfs48/45 is one of the leading transmission blocking vaccine candidates and a critical fertilisation antigen 💕
Please share widely- love to hear your feedback!
Pfs48/45 is one of the leading transmission blocking vaccine candidates and a critical fertilisation antigen 💕
Please share widely- love to hear your feedback!
Pfs48/45 nanobodies block Plasmodium falciparum transmission
Author summary Malaria is spread when an infected Anopheles mosquito bites a human. Within the female Anopheles mosquito, malaria parasite fertilisation occurs in the mosquito midgut. If you inhibit p...
journals.plos.org
February 2, 2026 at 8:36 AM
Pfs48/45 nanobodies block malaria parasite transmission 🦟 and crystal structures provide structural insight to how they bind 💎
Pfs48/45 is one of the leading transmission blocking vaccine candidates and a critical fertilisation antigen 💕
Please share widely- love to hear your feedback!
Pfs48/45 is one of the leading transmission blocking vaccine candidates and a critical fertilisation antigen 💕
Please share widely- love to hear your feedback!
Reposted by Colin Jackson
🧵1/3 I created this free 37-hour course, distributed across 10 lectures, to introduce AI-based protein design. For more information about the course and its specific topics, please visit the official course page:
January 22, 2026 at 9:16 PM
🧵1/3 I created this free 37-hour course, distributed across 10 lectures, to introduce AI-based protein design. For more information about the course and its specific topics, please visit the official course page:
Reposted by Colin Jackson
New Preprint!! We show that binding entropy can be quantitatively predicted from crystallographic ensemble models, accounting for both protein conformational entropy and solvent entropy! www.biorxiv.org/content/10.6...
January 21, 2026 at 8:49 PM
New Preprint!! We show that binding entropy can be quantitatively predicted from crystallographic ensemble models, accounting for both protein conformational entropy and solvent entropy! www.biorxiv.org/content/10.6...
www.biorxiv.org/content/10.6... most proteins are multi domain but our understanding of how architectures evolve is limited - we mapped 40K chitinases and show a stepwise “grammar” of domain gain/loss and localisation changes that predicts ecological strategy and physiological function.
www.biorxiv.org
January 20, 2026 at 3:20 AM
www.biorxiv.org/content/10.6... most proteins are multi domain but our understanding of how architectures evolve is limited - we mapped 40K chitinases and show a stepwise “grammar” of domain gain/loss and localisation changes that predicts ecological strategy and physiological function.
Reposted by Colin Jackson
I'm really excited to break up the holiday relaxation time with a new preprint that benchmarks AlphaFold3 (AF3)/“co-folding” methods with 2 new stringent performance tests.
Thread below - but first some links:
A longer take:
fraserlab.com/2025/12/29/k...
Preprint:
www.biorxiv.org/content/10.6...
Thread below - but first some links:
A longer take:
fraserlab.com/2025/12/29/k...
Preprint:
www.biorxiv.org/content/10.6...
Know when to co-fold'em
This is the official web page for the James Fraser Lab at UCSF.
fraserlab.com
December 29, 2025 at 10:25 PM
I'm really excited to break up the holiday relaxation time with a new preprint that benchmarks AlphaFold3 (AF3)/“co-folding” methods with 2 new stringent performance tests.
Thread below - but first some links:
A longer take:
fraserlab.com/2025/12/29/k...
Preprint:
www.biorxiv.org/content/10.6...
Thread below - but first some links:
A longer take:
fraserlab.com/2025/12/29/k...
Preprint:
www.biorxiv.org/content/10.6...
Reposted by Colin Jackson
My uni and many others have tried to centralize and automate many administrative functions. What happens is that the expertise is moved out of the department and then the rest of us suckers are left to learn to become admins and deal with all the edge cases. Such has been the last 6 yrs of my life
November 20, 2025 at 1:52 AM
My uni and many others have tried to centralize and automate many administrative functions. What happens is that the expertise is moved out of the department and then the rest of us suckers are left to learn to become admins and deal with all the edge cases. Such has been the last 6 yrs of my life
Reposted by Colin Jackson
Keen to use an open source workflow for nanobody discovery? Check out Alpseq 🦙
Alpseq’s diversity analysis, enrichment counts & clustering allow different approaches for nanobody selection
Great collab with bioinformaticians @qgouil.bsky.social Kathleen Zeglinski
www.biorxiv.org/content/10.1...
Alpseq’s diversity analysis, enrichment counts & clustering allow different approaches for nanobody selection
Great collab with bioinformaticians @qgouil.bsky.social Kathleen Zeglinski
www.biorxiv.org/content/10.1...
alpseq: an open-source workflow to turbocharge nanobody discovery with high-throughput sequencing
Nanobodies have emerged as promising tools for many biotechnological applications due to their small size, high stability, and remarkable binding specificity. Next-Generation Sequencing (NGS) enables ...
www.biorxiv.org
October 27, 2025 at 3:18 AM
Keen to use an open source workflow for nanobody discovery? Check out Alpseq 🦙
Alpseq’s diversity analysis, enrichment counts & clustering allow different approaches for nanobody selection
Great collab with bioinformaticians @qgouil.bsky.social Kathleen Zeglinski
www.biorxiv.org/content/10.1...
Alpseq’s diversity analysis, enrichment counts & clustering allow different approaches for nanobody selection
Great collab with bioinformaticians @qgouil.bsky.social Kathleen Zeglinski
www.biorxiv.org/content/10.1...
Reposted by Colin Jackson
Pomfret Vermont
📸 Ngoc Minh
📸 Ngoc Minh
October 9, 2025 at 9:27 AM
Pomfret Vermont
📸 Ngoc Minh
📸 Ngoc Minh
Reposted by Colin Jackson
H.M. Saffer II (American, b.1942) :
Moon Waters, 2023
Oil on canvas
30 × 30 in | 76.2 × 76.2 cm
Further description & bio in the alt text 👇
Moon Waters, 2023
Oil on canvas
30 × 30 in | 76.2 × 76.2 cm
Further description & bio in the alt text 👇
September 25, 2025 at 3:28 AM
H.M. Saffer II (American, b.1942) :
Moon Waters, 2023
Oil on canvas
30 × 30 in | 76.2 × 76.2 cm
Further description & bio in the alt text 👇
Moon Waters, 2023
Oil on canvas
30 × 30 in | 76.2 × 76.2 cm
Further description & bio in the alt text 👇
Reposted by Colin Jackson
‘Protein evolution as a complex system’ – A new Comment discusses protein evolution in terms of complex systems theory and machine learning approaches to model the dynamics of protein evolution
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Protein evolution as a complex system - Nature Chemical Biology
Viewing protein evolution through the lens of complex systems theory may offer new insights into the principles driving biological adaptation. In this Comment we explore how characteristics such as se...
www.nature.com
August 18, 2025 at 5:02 PM
‘Protein evolution as a complex system’ – A new Comment discusses protein evolution in terms of complex systems theory and machine learning approaches to model the dynamics of protein evolution
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Colin Jackson
Thank you everyone for the congratulations and the large number of applications! I want to specifically encourage applications for these positions:
* Postdoc in structural biology (cryoEM, ideally with X-ray too)
* Full time lab manager/technician with wetlab experience
* Postdoc in structural biology (cryoEM, ideally with X-ray too)
* Full time lab manager/technician with wetlab experience
I am super excited to announce that I will be starting my lab at the Department of Pharmacology of the University of Zurich in Switzerland next year!
July 29, 2025 at 6:01 PM
Thank you everyone for the congratulations and the large number of applications! I want to specifically encourage applications for these positions:
* Postdoc in structural biology (cryoEM, ideally with X-ray too)
* Full time lab manager/technician with wetlab experience
* Postdoc in structural biology (cryoEM, ideally with X-ray too)
* Full time lab manager/technician with wetlab experience
Reposted by Colin Jackson
Protein-ligand complexes are all the rage with OpenBind+other efforts launching
3 amazing papers describing 229 protein-ligand structures just dropped in @actacrystd.iucr.org
A tremendous teaching text, but I disagree on the discussed potential for misuse. Read more
fraserlab.com/2025/07/29/E...
3 amazing papers describing 229 protein-ligand structures just dropped in @actacrystd.iucr.org
A tremendous teaching text, but I disagree on the discussed potential for misuse. Read more
fraserlab.com/2025/07/29/E...
Embrace the Mess
This is the official web page for the James Fraser Lab at UCSF.
fraserlab.com
July 29, 2025 at 8:38 PM
Protein-ligand complexes are all the rage with OpenBind+other efforts launching
3 amazing papers describing 229 protein-ligand structures just dropped in @actacrystd.iucr.org
A tremendous teaching text, but I disagree on the discussed potential for misuse. Read more
fraserlab.com/2025/07/29/E...
3 amazing papers describing 229 protein-ligand structures just dropped in @actacrystd.iucr.org
A tremendous teaching text, but I disagree on the discussed potential for misuse. Read more
fraserlab.com/2025/07/29/E...
Reposted by Colin Jackson
Very excited about our latest all-atom generative model proteina, check out the project page (research.nvidia.com/labs/genair/...) and stay tuned for the code release soon!
July 19, 2025 at 8:46 PM
Very excited about our latest all-atom generative model proteina, check out the project page (research.nvidia.com/labs/genair/...) and stay tuned for the code release soon!
Reposted by Colin Jackson
nothing would make me happier than US science returning to the amazing and transformational legacy of success and dominance
but if that's not possible, we need other places with the vision to take over as the pacesetter
humanity's long term success demands no less
but if that's not possible, we need other places with the vision to take over as the pacesetter
humanity's long term success demands no less
Are you a top US-based scientist wanting to relocate to Australia? We are now calling for formal applications from both Australian and non-Australian citizens based in the US whose work is internationally recognised as exceptional.
📅 Applications close: Aug 29, 2025
🔗 science.org.au/gtap/?utm_so...
📅 Applications close: Aug 29, 2025
🔗 science.org.au/gtap/?utm_so...
July 12, 2025 at 2:30 AM
nothing would make me happier than US science returning to the amazing and transformational legacy of success and dominance
but if that's not possible, we need other places with the vision to take over as the pacesetter
humanity's long term success demands no less
but if that's not possible, we need other places with the vision to take over as the pacesetter
humanity's long term success demands no less
Pleased to announce I have been promoted to the rank of GRANDMASTER thank you for your attention to this matter
July 11, 2025 at 2:19 PM
Pleased to announce I have been promoted to the rank of GRANDMASTER thank you for your attention to this matter
Reposted by Colin Jackson
Proud to share our work where we resolved a longstanding question regarding the existence of a human telomerase dimer and provided insights into its function. Led by 3 amazing lab members in collaboration with @yiliangding.bsky.social and @rdaslab.bsky.social.
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Cryo-EM structure of human telomerase dimer reveals H/ACA RNP-mediated dimerization
Telomerase ribonucleoprotein (RNP) synthesizes telomeric repeats at chromosome ends using a telomerase reverse transcriptase (TERT) and a telomerase RNA (hTR in humans). Previous structural work showe...
www.science.org
July 10, 2025 at 9:26 PM
Proud to share our work where we resolved a longstanding question regarding the existence of a human telomerase dimer and provided insights into its function. Led by 3 amazing lab members in collaboration with @yiliangding.bsky.social and @rdaslab.bsky.social.
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
This paper started probably 20 years ago when I was working with John Oakeshott, a long time in the making and I think a nice summary of a complex real world evolutionary process
How predictable are the evolutionary pathways leading to insecticide resistance? Why do some species gain resistance while others do not? We explore these questions in our latest preprint. A huge effort from Rebecca Frkic, Alex Giang, Colin Jackson and the team.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
July 9, 2025 at 1:13 AM
This paper started probably 20 years ago when I was working with John Oakeshott, a long time in the making and I think a nice summary of a complex real world evolutionary process
Reposted by Colin Jackson
Seriously.
Pay for review, not publication
Publish public reviews
Editorial assessment changes until version of record
Flexible article types elife-rp.msubmit.net/html/elife-r...
Some work todo on reviewer credit (add @prereview.bsky.social to you cv!)
Pay for review, not publication
Publish public reviews
Editorial assessment changes until version of record
Flexible article types elife-rp.msubmit.net/html/elife-r...
Some work todo on reviewer credit (add @prereview.bsky.social to you cv!)
Please note: authors do not need to have already posted their research as a preprint for an initial evaluation by eLife. During submission authors can indicate if they have already posted a preprint, and if not, can ask us to deposit the work as a preprint to bioRxiv or medRxiv, as appropriate.
elife-rp.msubmit.net
June 30, 2025 at 1:13 PM
Seriously.
Pay for review, not publication
Publish public reviews
Editorial assessment changes until version of record
Flexible article types elife-rp.msubmit.net/html/elife-r...
Some work todo on reviewer credit (add @prereview.bsky.social to you cv!)
Pay for review, not publication
Publish public reviews
Editorial assessment changes until version of record
Flexible article types elife-rp.msubmit.net/html/elife-r...
Some work todo on reviewer credit (add @prereview.bsky.social to you cv!)
Reposted by Colin Jackson
New tools! GreenPy and ApplePy are fluorescent biosensors for pyruvate with huge responses (20–40x in vitro) and a range of affinities (10s of μM to mM). These should be game changers for imaging of metabolism! Great work by Shosei Imai @sikmys.bsky.social and team 👏. www.biorxiv.org/content/10.1...
High-performance genetically-encoded green and red fluorescent biosensors for pyruvate
Pyruvate is the end-product of glycolysis and a central metabolite involved in many biochemical pathways. However, a lack of high-performance (i.e., Δ F / F > 10) single fluorescent protein (FP)-base...
www.biorxiv.org
April 19, 2025 at 6:42 AM
New tools! GreenPy and ApplePy are fluorescent biosensors for pyruvate with huge responses (20–40x in vitro) and a range of affinities (10s of μM to mM). These should be game changers for imaging of metabolism! Great work by Shosei Imai @sikmys.bsky.social and team 👏. www.biorxiv.org/content/10.1...
Reposted by Colin Jackson
Average zero-shot mutation effect predictions across related sequences to reduce noise and improve accuracy.
@cwjpugh.bsky.social @paulinanunezv.bsky.social @jonnyfrazer.bsky.social Mafalda Dias
www.biorxiv.org/content/10.1...
@cwjpugh.bsky.social @paulinanunezv.bsky.social @jonnyfrazer.bsky.social Mafalda Dias
www.biorxiv.org/content/10.1...
June 9, 2025 at 2:49 PM
Average zero-shot mutation effect predictions across related sequences to reduce noise and improve accuracy.
@cwjpugh.bsky.social @paulinanunezv.bsky.social @jonnyfrazer.bsky.social Mafalda Dias
www.biorxiv.org/content/10.1...
@cwjpugh.bsky.social @paulinanunezv.bsky.social @jonnyfrazer.bsky.social Mafalda Dias
www.biorxiv.org/content/10.1...