Sign in

Jakob Farnung

@jakobfarnung.bsky.social
459 followers 347 following 27 posts

PostDoc Schulman Lab, MPI Biochemistry; formerly Bode Lab, ETH Zürich

PostsRepliesMedia
Reposted by Jakob Farnung
Sara Šepić @sarasepic.bsky.social · 16/09/2026
Excited to share our latest work on understanding CTLH-MKLN1 substrate recruitment. Stay tuned for the paper 🤗
2139
Reposted by Jakob Farnung
bioRxiv Biochemistry @biorxiv-biochem.bsky.social · 16/09/2026
Multimodal substrate recruitment enables CTLH-MKLN1 E3 ligase to target N-, C-, and internal degrons www.biorxiv.org/content/10.64898/20…
099
Reposted by Jakob Farnung
Seychelle Vos @voslab.org · 08/09/2026
⚡Preprint alert⚡ So proud of @amohamed98.bsky.social! Abdallah determined the cryo-EM structure of BRD4 bound to the kinase P-TEFb, defining the molecular basis of this key transcription interaction — and revealing that BRD4 and AFF4 binding are mutually exclusive to P-TEFb. Lots more inside 👇
13614
Reposted by Jakob Farnung
Kashish Singh @kashishsingh.bsky.social · 13/08/2026
Very happy to see the final version of our work on the structure and composition of cytoplasmic lattices in mouse embryos, previously shared on bioRxiv, now published in The EMBO Journal! Many thanks to our editor, Ieva Gailite, and the reviewers for their constructive input.
15019
Reposted by Jakob Farnung
Martina Foglizzo @foglizzomartina.bsky.social · 11/08/2026
Extremely happy to see that my latest work on understanding how ARISC-RAP80 recognises and cleaves ubiquitin chains is now published @natcomms.nature.com Check it out if you are interested in #DUBs, #DNA repair, or #cryo-EM: www.nature.com/articles/s41...
nature.com
Mechanism of K63-linked polyubiquitin recognition and cleavage by the BRCA1-A complex - Nature Communications
How the BRCA1-A complex finds and removes ubiquitin signals at DNA breaks remains unknown. Here the authors show that ARISC–RAP80 binds K63-linked ubiquitin chains through multiple subunits and non-ca...
3239
Reposted by Jakob Farnung
Cell Biology J-Club @cellclub.bsky.social · 11/08/2026
link.springer.com/article/10.1...
link.springer.com
In-situ cryo-ET of mouse embryos reveals cytoplasmic lattices contain ubiquitin-charged E2-E3 ligase assemblies - The EMBO Journal
Cytoplasmic lattices (CPLs) are filamentous assemblies essential for mammalian embryonic development. They are known to regulate organelle organization, spindle assembly, and protein homeostasis, but ...
0103
Reposted by Jakob Farnung
Seychelle Vos @voslab.org · 29/05/2026
⚡New preprint from the lab⚡: A key early checkpoint in gene expression is promoter proximal pausing of RNA polymerase II. For over 20 years, we as field have not been able to recreate pausing under realistic cellular conditions. @robertovn.bsky.social shows that ELOF1 is the missing piece.
16430
Reposted by Jakob Farnung
Lucas Farnung @lucas.farnunglab.com · 15/05/2026
Excited that Della Syau's PhD work is now available as a NAR Breakthrough article: academic.oup.com/nar/article/.... Della's work clarifies how IWS1 engages the transcription elongation complex, stimulates transcription, and controls association of other factors such as RECQL5.
academic.oup.com
Structure and function of IWS1 in transcription elongation
Abstract. Transcription elongation by RNA polymerase II is a tightly regulated process that requires coordinated interactions between transcription elongat
13411
Reposted by Jakob Farnung
Max Planck Institute of Biochemistry @mpibiochem.bsky.social · 13/05/2026
New work from the Schulman Dept. shows mechanisms of metabolite-regulated E3 ligase activity. Read more about it: “Cysteine availability tunes ubiquitin signaling via inverse stability of LRRC58 E3 ligase and its substrate CDO1” in Nature Communications. www.nature.com/articles/s41...
0186
Reposted by Jakob Farnung
Lucas Farnung @lucas.farnunglab.com · 08/05/2026
The Farnung Lab is looking for postdoctoral researchers interested in understanding mechanisms at the intersection of chromatin, transcription, and replication. Find out more here: www.farnunglab.com
farnunglab.com
Contact — Farnung Lab
02919
Reposted by Jakob Farnung
cryoEM papers @cryoempapers.bsky.social · 08/05/2026
Cysteine availability tunes ubiquitin signaling via inverse stability of LRRC58 E3 ligase and its substrate CDO1 pubmed.ncbi.nlm.nih.gov/42098103/ #cryoEM
094
Reposted by Jakob Farnung
Lucas Farnung @lucas.farnunglab.com · 08/05/2026
BenchOS.ai just received an update. Check out the feature section to see what you ca do with BenchOS.
benchos.ai
BenchOS - An Operating System for Molecular and Structural Biology
A lab operating system and AI agent for structured molecular and structural biology workflows.
3125
Reposted by Jakob Farnung
Simon Bullock @simonbullock11.bsky.social · 05/05/2026
Thrilled to see this work published. Thanks to helpful reviewer suggestions, there are some exciting new insights that were not in the preprint (particularly in Figure 4). www.nature.com/articles/s41...
nature.com
Structural basis for recognition of diverse localizing mRNAs by Egl–BicD - Nature Structural & Molecular Biology
Singh et al. combine cryo-electron microscopy and functional studies to reveal how a single protein complex selects diverse mRNAs for subcellular localization using a combination of shape, positional ...
35834
Reposted by Jakob Farnung
Komander Lab @komanderlab.bsky.social · 24/04/2026
Check out our latest paper on the ubiquitination of glycogen in cells and tissues! Congratulations to Marco Jochem (@marcojochem.bsky.social) and Simon Cobbold for leading this study and to collaborators @craigagoodman1.bsky.social, @pgregorevic.bsky.social, Kai Hofmann and Thomas Hermanns.
03619
Reposted by Jakob Farnung
Haselbach Lab @haselbachlab.bsky.social · 23/04/2026
A new paper in which we could contribute structural insights to the great biochemical work from our collaborators from UNC Chapel Hill. Sascha Amann from our lab was yet again able to solve several very challenging structures. This time of a SCF with Protac and target www.nature.com/articles/s41...
nature.com
Structural basis of NSD2 degradation via targeted recruitment of SCF-FBXO22 - Nature Communications
Compound-mediated targeted protein degradation through the recruitment of Ub ligases is an emerging field. Here, the authors determine key structural and biochemical principles for harnessing SCF-FBXO...
1339
Reposted by Jakob Farnung
Marco Jochem @marcojochem.bsky.social · 23/04/2026
Interested in non-proteinaceous ubiquitination, induced proximity or glycogen? Then you should have a look at our newest article, “Ubiquitination of glycogen and metabolites in cells and tissues”, just published in Nature: www.nature.com/articles/s41...
55331
Reposted by Jakob Farnung
Max Planck Institute of Biochemistry @mpibiochem.bsky.social · 08/04/2026
How do you get a charged drug into a cell when charged molecules can't cross the membrane? You don't — you let the cell do the charging. Check our new paper "Charged molecular glue discovery enabled by targeted degron display" in Nature Chemical Biology. ❕Publication: www.nature.com/articles/s41...
1126
Reposted by Jakob Farnung
Carter Lab @carter-lab.bsky.social · 24/03/2026
Excited to share our work on the structure and function of cytoplasmic lattices within mouse embryos. A collaborative effort with @niakanlab.bsky.social and work led by @kashishsingh.bsky.social and @inaharasimov.bsky.social . It is now out on BioRxiv: www.biorxiv.org/content/10.6...
620684
Reposted by Jakob Farnung
IMPRS for Living Matter @imprs-lm.bsky.social · 23/03/2026
Excited to decode the intricate language of ubiquitin chains and unravel their role in protein degradation? 🧬🔬 👉 APPLY NOW to join the lab of Dr. Leo Kiss @leokiss.bsky.social @imprs-lm.bsky.social. #CellularBiochemistry #Ubiquitin #Proteostasis #ProteinDegradation
02015
Reposted by Jakob Farnung
cryoEM papers @cryoempapers.bsky.social · 21/03/2026
The E3 ubiquitin ligase mechanism specifying targeted microRNA degradation pubmed.ncbi.nlm.nih.gov/41851464/ #cryoEM
072
Reposted by Jakob Farnung
David Bartel's Lab @bartellab.bsky.social · 19/03/2026
Our work on the E3 ligase mechanism of target-directed microRNA degradation is now published! Amazing collaboration with Brenda Schulman’s lab led by @jakobfarnung.bsky.social and @elenaslo.bsky.social, with special thanks to @wyppeter.bsky.social, Lianne Blodgett, and Daniel Lin! tinyurl.com/Z8TDMD
tinyurl.com
The E3 ubiquitin ligase mechanism specifying targeted microRNA degradation - Nature
Target-directed microRNA degradation is driven by the atypical ZSWIM8–CUL3 E3 ubiquitin ligase that uses a two-RNA-factor authentication mechanism to specifically recognize AGO–miRNA–trigger...
06120
Reposted by Jakob Farnung
Lucas Farnung @lucas.farnunglab.com · 18/03/2026
Glückwunsch, Bruderherz! Really outstanding work by @bartellab.bsky.social and Schulman Lab. This is how transatlantic research is done 🇺🇸🇩🇪.
0162
Jakob Farnung @jakobfarnung.bsky.social · 18/03/2026
The E3 ubiquitin ligase mechanism specifying target-directed microRNA degradation (TDMD) is now published! 🎉🍾 We, @bartellab.bsky.social and Schulman lab, describe how 2-RNA factors control protein degradation by recruiting an E3 ligase. @mpibiochem.bsky.social www.nature.com/articles/s41...
18538
Reposted by Jakob Farnung
Dawafuti Sherpa @dawafutisherpa.bsky.social · 11/03/2026
Excited to announce that FASEB Ignite Career Forum 2026 (preceding FASEB Ubiquitin Mechanisms, Functions, and Therapeutics & Protein Folding in the Cell) is open for registration! Abstract deadline - April 6, 2026 For more details - events.faseb.org/event/Protei... events.faseb.org/event/Ubiqui...
0108
Jakob Farnung @jakobfarnung.bsky.social · 05/03/2026
Congratulations, @leokiss.bsky.social ! 🎉🎉 looking forward to the exciting research of the Kiss lab. This is a great opportunity for prospective PhD students interested in doing cutting-edge research 🧪 on ubiquitin!
030
Reposted by Jakob Farnung
Seychelle Vos @voslab.org · 19/02/2026
🚨New preprint! We built a cell-free genomics platform (GATO-seq) to probe transcriptional regulation and discovered a “super pause” sequence that triggers a new Pol II active-site conformation. Huge shout-out to @robertovn.bsky.social for pulling off this monster of a project. tinyurl.com/superpause
04912
Reposted by Jakob Farnung
Lucas Farnung @lucas.farnunglab.com · 09/02/2026
🚨Preprint alert🚨 How does chromatin “architecture” form at CTCF sites? Our new preprint with @voslab.org and @andersshansen.bsky.social shows CTCF dimerization promotes nucleosome oligomerization on chromatin. tinyurl.com/CTCF-nucleos...
06918
Reposted by Jakob Farnung
mosorio91.bsky.social @mosorio91.bsky.social · 09/02/2026
Happy to share part of my postdoctoral work at the @lucas.farnunglab.com lab. Great collaboration with @voslab.org and @andersshansen.bsky.social. “Structural basis for CTCF-mediated chromatin organization” www.biorxiv.org/content/10.6...
0309
Reposted by Jakob Farnung
Seychelle Vos @voslab.org · 09/02/2026
🧪🧬New preprint We present cryo-EM structures of reconstituted CTCF–nucleosome complexes, showing CTCF dimerization drives nucleosome oligomerization into defined higher-order assemblies. Disrupting CTCF–CTCF interfaces in mESCs reduces looping and impairs differentiation. tinyurl.com/CTCF-nucleos...
412553
Reposted by Jakob Farnung
Max Planck Institute of Biochemistry @mpibiochem.bsky.social · 28/01/2026
Formation & function of #MembranelessOrganelles! #CryoET structures of #proteasome storage granules inside cells! Read our paper @cp-cell.bsky.social! ❕Publication: doi.org/10.1016/j.ce... ❕Press Release: www.biochem.mpg.de/en/pressroom @uoftmedicine.bsky.social @erc.europa.eu #UPSmeetMet
07226
Reposted by Jakob Farnung
David Bartel's Lab @bartellab.bsky.social · 23/01/2026
We’re excited to share our latest preprint on the mechanism of excised linear intron stabilization in yeast! This work was led by PhD student @glennli.bsky.social and was a wonderful collaboration with @maxewilkinson.bsky.social. Link: www.biorxiv.org/content/10.6... (1/4)
15925
Reposted by Jakob Farnung
The Woo Lab @thewoolab.bsky.social · 21/01/2026
Pour a glass of champagne AND red Bordeaux—Our newest work with GSK @scripps.edu is out in @nature.com! Here we describe SB-405483, the first allosteric CRBN ligand which potentiates neosubstrate degradation. Congrats Vanessa and all authors! 🍷💫💐 www.nature.com/articles/s41...
15011
Reposted by Jakob Farnung
Lucas Farnung @lucas.farnunglab.com · 13/01/2026
This is also a good occasion to highlight that we are looking for post-doctoral researchers that are interested in understanding the fundamental mechanisms of transcription, DNA replication, and chromatin.
093
Jakob Farnung @jakobfarnung.bsky.social · 13/01/2026
Check out the newest preprint from the Schulman lab 🎊🎉 Super cool mechanism of how a metabolite regulates the stability of its own metabolizing enzyme! Alina did it all for this project CRISPR screen ✂️, biochemistry 🧪, and cryo-EM ❄️🔬. Congrats!
0135
Reposted by Jakob Farnung
Leo Kiss @leokiss.bsky.social · 06/01/2026
What happens when E3 Ubiquitin Ligase and RNA Enthusiasts team up! Massive congrats to this transatlantic collaboration between @jakobfarnung.bsky.social from Schulman Lab and @elenaslo.bsky.social from @bartellab.bsky.social Have a read!
092
Reposted by Jakob Farnung
cryoEM papers @cryoempapers.bsky.social · 06/01/2026
The E3 ubiquitin ligase mechanism specifying target-directed microRNA degradation www.biorxiv.org/content/10.64898/2026.01.05.697729v1 #cryoEM
063
Reposted by Jakob Farnung
Leo Kiss @leokiss.bsky.social · 06/01/2026
Look at this super exciting E3, recognizing the specific RNA-bound state of it’s target protein alone! Massive Congrats @jakobfarnung.bsky.social and collaborators from @bartellab.bsky.social
061
Jakob Farnung @jakobfarnung.bsky.social · 06/01/2026
When RNA Degradation 🤝 meets 🤝 Protein Degradation! tinyurl.com/E3TDMD In a collaboration of @bartellab.bsky.social and Schulman lab, we show that, in target-directed microRNA degradation (TDMD), 2-RNA-factors recruit an E3 ligase and induce the degradation of not only a protein but also RNA (1/5).
111850
Reposted by Jakob Farnung
Max Planck Institute of Molecular Cell Biology and Genetics @mpi-cbg.de · 11/12/2025
New research group leader @matthiasmuhar.bsky.social joins @mpi-cbg.de! 🥳 With his group "Functional genomics of proteome remodeling,” Matthias wants to pursue high-throughput genetic studies to understand how protein turnover is regulated. Welcome, Matthias! www.mpi-cbg.de/news-outreac...
mpi-cbg.de
New research group leader for functional genomics
Molecular biologist Matthias Muhar becomes part of the MPI-CBG faculty
04415
Reposted by Jakob Farnung
bioRxiv Biochemistry @biorxiv-biochem.bsky.social · 15/11/2025
Cysteine availability tunes ubiquitin signaling via inverse stability of LRRC58 E3 ligase and its substrate CDO1 www.biorxiv.org/content/10.1101/202…
096
Reposted by Jakob Farnung
David Bartel's Lab @bartellab.bsky.social · 07/11/2025
Check out the latest work from our lab, led by Daniel Lin and Lara Elcavage: www.biorxiv.org/content/10.1... (1/3)
biorxiv.org
mRNA 3′ UTRs direct microRNA degradation to participate in imprinted gene networks and regulate growth
MicroRNAs direct downregulation of target mRNAs. Sometimes, however, this regulatory paradigm inverts, and a target RNA triggers the degradation of a microRNA. This target-directed microRNA degradatio...
13316
Reposted by Jakob Farnung
Leo Kiss @leokiss.bsky.social · 04/11/2025
Have a look at this Tools of the Trade Article I wrote for @natrevmcb.nature.com on decoding #ubiquitin signals inside cells using UbiREAD! Many thanks to @lisaheinke.bsky.social for the opportunity to write this TotT!
02412
Reposted by Jakob Farnung
Nature Reviews Molecular Cell Biology @natrevmcb.nature.com · 03/11/2025
ICYMI: New Online! Decoding ubiquitin signals inside cells
bit.ly
Decoding ubiquitin signals inside cells
Nature Reviews Molecular Cell Biology, Published online: 31 October 2025; doi:10.1038/s41580-025-00919-zIn this Tools of the Trade article, Kiss (Schulman lab) discusses the development of UbiREAD, a method that delivers in vitro-ubiquitinated protein reporters into cells to systematically assess how different ubiquitin chain configurations affect protein stability and degradation.
0146
Reposted by Jakob Farnung
Lucas Farnung @lucas.farnunglab.com · 29/08/2025
🧬 Transcription elongation by RNA polymerase II relies on a web of elongation factors. Our new work shows how IWS1 acts as a modular scaffold to stabilize & stimulate elongation. Fantastic work by Della Syau! www.biorxiv.org/content/10.1...
15724
Reposted by Jakob Farnung
Carolin Klose @carolinklose.bsky.social · 05/08/2025
Excited to share our latest study in @natcomms.nature.com , where we characterize the chaperone function of the ER membrane protein complex (EMC)—supporting membrane protein biogenesis beyond insertion! 1/9 www.nature.com/articles/s41...
nature.com
The EMC acts as a chaperone for membrane proteins - Nature Communications
Membrane proteins are essential for any cell but difficult to fold. Here, the authors show that the EMC acts as a chaperone for membrane proteins. They dissect client recognition and provide a molecul...
1299
Reposted by Jakob Farnung
Leo Kiss @leokiss.bsky.social · 25/06/2025
Excited about #ubiquitin and #TPD ? Then join us tomorrow for the latest instalment of the @danafarber.bsky.social ‬ Targeted Protein Degradation Webinar where Kimberly Stegmaier and I will present our latest work. dfci.zoom.us/webinar/regi...
0135
Reposted by Jakob Farnung
Harvard Med Cell Biology @harvardcellbio.bsky.social · 18/06/2025
Congratulations to our own Lucas Farnung @lucas.farnunglab.com who has been named as one of 30 Freeman Hrabowski Scholars for 2025 by the Howard Hughes Medical Institute (HHMI). So well deserved deserved !! www.hhmi.org/programs/fre...
hhmi.org
The 2025 Freeman Hrabowski Scholars | HHMI
Freeman Hrabowski Scholars are outstanding early career faculty who have the potential to become leaders in their research fields.
0286
Reposted by Jakob Farnung
Leo Kiss @leokiss.bsky.social · 02/06/2025
Schulman lab is ready for the GRK2243 Symposium: Understanding ubiquitination: from molecular mechanisms to disease in würzburg #wUeBI2025 @grk2243.bsky.social @jakobfarnung.bsky.social @samuelmaiwald.bsky.social @hannahbkmpr.bsky.social
2286
Jakob Farnung @jakobfarnung.bsky.social · 26/05/2025
Super cool story on branched UB chain formation. Congrats Sam!
1103
Reposted by Jakob Farnung
Samuel Maiwald @samuelmaiwald.bsky.social · 26/05/2025
Excited to share our latest study on how K29/K48-branched #ubiquitin chains are forged by the #E3 ligase TRIP12, and how this suggests a consensus mechanism for chain formation by HECT E3s! @natsmb.nature.com 1/7 www.nature.com/articles/s41...
nature.com
TRIP12 structures reveal HECT E3 formation of K29 linkages and branched ubiquitin chains - Nature Structural & Molecular Biology
Using biochemistry, chemical biology, and cryo-EM, Maiwald et al. elucidate how TRIP12 forms K29 linkages and K29/K48-linked branched ubiquitin chains, revealing a mechanism for polyubiquitylation sha...
44517