Ankan Banerjee

seeing through the eyes of little explorers

[Ankan Banerjee @BiochemAnkan]

Happy to share our new preprint on bioRxiv.https://t.co/xc4jiuPzVQ
Combined structural and EFI-EST @IGBIllinois analysis defining the molecular determinants for CYTH enzymes (PF01928). @Archaellum
@MarIan35057106
#archaea #Pfam #Adenylylcyclase #triphosphatase

[Jarrid Rector-Brooks @jarridrb]

What if AI could invent enzymes that nature hasn’t seen? 👩‍🔬🧑‍🔬

Introducing 🪩 DISCO: Diffusion for Sequence-structure CO-design

14 rounds of directed evolution and over a year of wet lab work. That's what it took to engineer an enzyme for selective C(sp³)–H insertion, one of the most challenging transformations in organic chemistry.

DISCO surpasses this with a single plate. No pre-specified catalytic residues, no template, no theozyme, no inverse folding, just joint diffusion over protein sequence and structure.

📝 Blog: https://t.co/j9Za0JigfO
📄 Paper: https://t.co/ficrYNBBrM
💻 Code: https://t.co/p81sSwoaPH

[nature @Nature]

Nature research paper: Remodelling autoactive NLRs for broad-spectrum immunity in plants

https://t.co/pJAZLHieVb

[Aaron Ring @aaronmring]

Just a few months ago, the Baker and Garcia labs released con-concurrent preprints with incredible results. They designed de novo miniproteins that bound specific peptides presented in MHC-I.

Now let me show how you can use BindCraft at @AriaxBio to do the same thing.

[Abhrajyoti Ghosh @Abhrajyoti2012]

New results from the lab!!!
Our recent study analyzes the archaeal SRP system, focusing on the FtsY protein's N-terminal domain. This work highlights the key role of the A domain and N-terminal alpha helices in generating the functional TC in archaea.
https://t.co/A4QkGZSSBa

[Patrick Hsu @pdhsu]

AI provides a universal framework that leverages data and compute at scale to uncover higher-order patterns

Today, @arcinstitute in collaboration with @nvidia releases Evo 2—a fully open source biological foundation model trained on genomes spanning the entire tree of life 🧵

[Nature Communications @NatureComms]

@NathalieKlein98 @patrick_pausch determine cryo-EM structures of two evolutionarily distinct type IV-A complexes (types IV-A1 and IV-A3) bound to cognate DNA-targets #CRISPR

https://t.co/PyVgqKWpof

[Nitin Bohra @nitinbohra3]

I am happy to share that our efforts in @erblabs to integrate metabolism with TXTL to build self sustaining life like systems got one step closer. Now out in @ScienceMagazine 🥳 https://t.co/ZTjp1ELphi

[Julian Englert @julian_englert]

Benchmarking AI-designed proteins in our lab

New AI models for designing proteins are coming out at a faster and faster pace! Just in the past two weeks, two new models were released: @diffuse_bio's DSG-1 and @EvoscaleAI‘s ESM3.

As the number of AI models increases, it becomes important for protein designers to know what model actually works best for their application.

At @adaptyvbio we just launched a series of real-world benchmarks to understand how state-of-the-art protein design models perform when tested in the lab.

For this first case study, we’re validating some de-novo designed binders from RFdiffusion by @UWproteindesign.

Read more:
https://t.co/wJJiIxqSZF

[Abhrajyoti Ghosh @Abhrajyoti2012]

Excited to share our recent findings published in FEBS Journal. This is a cool story on the archaeal #chaperonin (#thermosome or #hsp60) as a functional mosaic. @Koustav_307 @MousamRoy15 @bose_institute
#archaea #sulfolobus #folding #chaperone
https://t.co/KuGhpIFxZm

[Abhrajyoti Ghosh @Abhrajyoti2012]

Excited to share our recent findings on @biorxiv. This is a cool story on the archaeal #VapBC toxin-antitoxin system. Many thanks for excellent collaboration with @Archaellum.
@Alejandra_ReCa @bose_institute @bhowmick_arghya
https://t.co/i9bDCD2MzG

[bioRxiv Microbiology @biorxiv_micrbio]

The use of thermostable fluorescent proteins for live imaging in Sulfolobus acidocaldarius https://t.co/Hz5GOpGqAy #biorxiv_micrbio

[Bertram Daum @DaumLaboratory]

Our paper on the structure of twitching pili from the archaeon S. acidocaldarius is finally out in Nat Comms! https://t.co/wdTZSDPYRr. Thanks the authors Matt Gaines, @S_Shamphavi, @misha_isupov, Risat Haque, @cyril_hanus, @mathewjmclaren, @the_gold_lab, @archaellum.

[Mariana Sanchez Londono @mariana_sanlo24]

So excited to kick off my X journey with exciting news! Exploring the power of Type IV-A1 CRISPR-Cas systems for gene regulation and understanding plasmid targeting 🧬🔬🦠 Thanks @SelinaRust @royerht @ThanbichlerLab @RandauLab
https://t.co/cU3a3KQYrM
#CRISPR #Biotechnology

[Selina Rust @SelinaRust]

Very happy to see our story about the Type IV-A1 CRISPR-Cas system as a preprint on bioRxiv. Thank you so much @RandauLab @ThanbichlerLab & @royerht!

https://t.co/UHgF3JfrZz

[Adrien Leger @AdrienLeger2]

If you missed our modified DNA (5mC/5hmC/6mA/4mC/dU) and RNA (m6A/pseudoU/Inosine) bases update at #nanoporeconf London Calling 2024 it is now on YouTube https://t.co/Hz8fLs1tm3
@nanopore

[Ankan Banerjee @BiochemAnkan]

@Archaellum lab alumni at VAAM annual congress 2024

[BangeBalcony @BangeBalcony]

Please RT: Interested in a PostDoc Position? ⁦@SYNMIKRO⁩ ⁦@Uni_MR⁩ ⁦@mpi_marburg⁩ https://t.co/Ur4wj6inM1

[Suzuki Lab. @SuzukiRNALab]

We're excited to announce registration and abstract submission for tRNA2024 is now open!
You can get the early bird discount until July 16.
Please check our updated official homepage https://t.co/eE11ZOb3xl.

[Genis Valentin @no1gv]

Our mechanistic insights on human 3′-tRNA maturation by the RNAse Z complex are now on bioRxiv!
https://t.co/MOm3fDi2je. The main findings follow:

[Di Jiang @dijiang319]

Online @ScienceMagazine @artemnemudryi @WiedenheftLab + al show #CRISPR-guided #RNA breaks are repaired in human cells, and this RNA repair can be used for programmable editing of human transcriptomes https://t.co/KeJ9y7q9hl