Maxim Tsenkov

272 posts

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Maxim Tsenkov

Maxim Tsenkov

@mitsenkov

Structural bioinformatician working at AlphaFold DB in the PDBe. Enriching protein structure models and implementing new tools.

Hinxton, England Katılım Şubat 2019
751 Takip Edilen345 Takipçiler
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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
#AlphaFold DB now has TED integrated! It's a special one for me — my first project where I took ownership from start to finish, bringing together different teams to integrate domain annotations into AFDB. Huge learning experience, and I’m excited to finally see it live! 🧵(1/6)
EMBL-EBI@emblebi

🚀#AlphaFold Database update AlphaFold DB now integrates The Encyclopedia of Domains (TED) – a resource designed to systematically identify & classify structural domains within AlphaFold-predicted protein structures. ebi.ac.uk/about/news/upd…

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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
You probably heard about the last major release at #AlphaFold Database two weeks ago. We hope this new post will cover any further questions about the details of the release. If you have any other questions, please do reply here or email us your queries – afdbhelp@ebi.ac.uk
Protein Data Bank@PDBeurope

AlphaFold DB v6 (synced with UniProt 2025_03) is live! Here are the details: Totals v4 → v6: 241,070,489 entries. Since v4: +65,711,653 added, 39,324,993 removed, 276,539 changed (in sequence), 175,082,297 unchanged (metadata refresh, relabelled v6). Details 👇

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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
The latest #AlphaFold DB update is out! We synchronised with @uniprot release 2025_03, predicted protein isoforms across all species, and provide MSAs used to generate each prediction. Proud of the team at the @PDBeurope for the hard work that went into this!
EMBL-EBI@emblebi

We’re renewing our collaboration with @GoogleDeepMind! We'll keep developing the AlphaFold Database to support protein science worldwide 🎉 To mark the moment we’ve synchronised the database with UniProtKB release 2025_03 ebi.ac.uk/about/news/tec… #AlphaFold

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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
It's just the start! I’ll be sharing more on this new feature on AlphaFold DB, cool use-cases, and various other updates. Got an interesting domain example? Find a case where TED annotations shine (or break) in our new feature? Let me know! Follow for more updates! 🔜 🧵(6/6)
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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
And, of course, TED wouldn’t exist without Prof. David Jones (@psipred) & Prof. Christine Orengo’s groups at @ucl, who developed and maintain this incredible resource. Their work made this integration possible! 🏗️ 🧵(5/6)
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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
#AlphaFold DB now has TED integrated! It's a special one for me — my first project where I took ownership from start to finish, bringing together different teams to integrate domain annotations into AFDB. Huge learning experience, and I’m excited to finally see it live! 🧵(1/6)
EMBL-EBI@emblebi

🚀#AlphaFold Database update AlphaFold DB now integrates The Encyclopedia of Domains (TED) – a resource designed to systematically identify & classify structural domains within AlphaFold-predicted protein structures. ebi.ac.uk/about/news/upd…

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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
And just like that, AlphaFold3 is now open source! Take a look at it yourselves, and have fun predicting some cool macromolecular complexes! nature.com/articles/d4158…
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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
The Encyclopedia of Domains (TED) is out now! This here is some incredible work done to structurally identify domain annotations across all ~214 million #AlphaFold models at AlphaFold DB. This was a collaborative work between @CATH_Gene3D and the Jones group (@psipred) at @ucl.
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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
@luminous_lab @Blender Oh my god wowow! This looks incredible! But how did you go about finding the right lighting, texture, and material to get that translucent green feel like kelp? Absolutely amazing render…
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Verena Resch
Verena Resch@luminous_lab·
I am currently playing with different materials that are further from my usual style. Here I tried to create a ribosome to look like kelp 🌱 or something you would find in the sea. Structure imported using #molecularnodes and image is rendered with @Blender #sciart #b3d
Verena Resch tweet mediaVerena Resch tweet mediaVerena Resch tweet media
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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
Excited to be at #FEBS2024 Congress in Milano! I presented our latest work on integrating #AlphaMissense into #AlphaFold DB. This allows users to interactively explore all missense variants in canonical human proteins. Let's have a chat to learn how it can help you! #FEBS2024
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Brady Johnston
Brady Johnston@bradyajohnston·
Just released a new #MolecularNodes version. A bunch of bug fixes, but two new features after multiple requests in some recent workshops. - Panel to download from the #AlphaFold database - Quickly change styles by right clicking #b3d #GeometryNodes
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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
and we now have another iteration of AlphaFold! @GoogleDeepMind has finally released its latest AI model to predict the structure of proteins with their cognate ligands. Check out their webserver golgi.sandbox.google.com/about and make sure to read their paper nature.com/articles/s4158…
Google DeepMind@GoogleDeepMind

Announcing AlphaFold 3: our state-of-the-art AI model for predicting the structure and interactions of all life’s molecules. 🧬 Here’s how we built it with @IsomorphicLabs and what it means for biology. 🧵 dpmd.ai/3URDiNo

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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
Wow, these are incredible…
Dr Michael Schwimmer@MichaelSchwimm1

It's #PortfolioDay ! I'm Michael, currently a PhD student in the biological sciences and budding scientific animator and designer. Interested in the complexity of life at microscopic scales. Here's a few things I've made and my portfolio website is linked in the replies!

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Maxim Tsenkov
Maxim Tsenkov@mitsenkov·
@striepenlab That’s hilarious ha! What UniProt accession is this? Is it a particular family of proteins? Do they have known functions?
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Boris Striepen
Boris Striepen@striepenlab·
Working with parasite proteins is when even AlphaFold has not the foggiest idea what this protein may be doing. 🤷
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Keşfet

@uniprot @PDBeurope @psipred @ucl @luminous_lab @Blender @fenguita @proteinimaging