@AriaxBioi
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World-class AI-powered protein design tools like BindCraft and BoltzGen, no-code UI, and instant GPUs—30% cheaper than AWS. Just pay for compute.
Joined April 2025
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BindCraft2 from the @MartinPacesa lab is here and available now on Ariax!
We called BindCraft a “DeepSeek moment” in protein design. BC2 builds on that proven foundation with major speed improvements and a much broader range of therapeutic formats.
ariax.bio/resources/bindcraf…
Miniproteins, Fab, scFv variable domains, VHH, ankyrin-repeat proteins, and linear/cyclic peptides.
Add multi-target design, off-target avoidance, and more biological control. All built around BindCraft’s AF2-guided design and ProteinMPNN workflow.
github.com/PacesaLab/BindCra…
Design nanobodies, antibodies, and miniproteins with ESMFold2, the latest state-of-the-art model from the ESM team.
ESMFold2-pipeline is now live on Ariax Bio, the only hosted platform for the complete design workflow.
Read our announcement:
ariax.bio/resources/esmfold2…
Ariax Bio retweeted
Thanks to @NikoMcCarty and the Asimov team for helping me get this out!
Hopefully an interesting view into where we are with AI antibody design today. Featuring @boltz_bio BindCraft @ai4s_protenix @AriaxBio @modal @tamarindbio @diffuse_bio @try_litefold @chaidiscovery @nablabio
A few years ago, designing an antibody on the computer was extremely difficult.
Today, there are several open-source tools which allow anyone to design antibodies from home.
Out today: A step-by-step guide to antibody design. By @btnaughton.
Ariax Bio retweeted
What happened in the Nipah Protein Design Competition so far?
Plus: Prediction markets for protein design
TLDR:
• We hosted our third installment of the Protein Design Competition on @proteinbase, this time challenging participants to design a binder against the Nipah virus glycoprotein.
• The response was incredible: Over 10’000 designs were submitted, over 5 times the number of designs in the past 2 competitions combined, with more than 650 total participants.
• We’re currently testing all 1’200 selected designs, but, in the meantime, we’re taking a brief detour into what happened during the competition. Which model was the fan favorite? What did the top-ranking designs look like? And how can we select a better ranking metric for future competitions?
• Plus, we opened a prediction market on Manifold for this competition so you can bet on hit rates, best performing models, and more
Curious how to run BoltzGen?
Our new tutorial walks through the complete workflow using our Adaptyv Nipah Competition submission as a real-world example. Target prep, hotspot selection, and launching parallel VHH/miniprotein campaigns.
Full tutorial: ariax.bio/resources/boltzgen…
For alpha helical peptides, BindCraft is the SOTA model to beat. See our tutorial and commentary from BindCraft creator Martin Pacesa here:
ariax.bio/resources/bindcraf…
BindCraft is generating high-affinity peptides from structure alone 🧬
MDM2: 47% hit rate (7/15 tested) with nM affinity. For WDR5, structural predictions were so precise they enabled "one-shot" stapling for a 6× potency boost (Kd 39nM).
No phage display. No alanine scanning.
GenAI is accelerating rational chemical design with less wet-lab screening.
New GPUs on Ariax: Nvidia B300 + RTX 6000 Pro now live.
B300 delivers a major performance jump for large/time-critical protein design campaigns. RTX 6000 Pro brings high VRAM for phenomenal value.
BindCraft already runs on B300; BoltzGen support soon.
ariax.bio/resources/new-gpus…
Open source strikes back!
BoltzGen delivers Chai-2 level antibody design performance under an MIT license. Design nanobodies (VHH), cyclic-peptides, helicons, and miniproteins with an all-atom framework.
Run it now without limits on Ariax.
ariax.bio/resources/boltzgen…
Ariax Bio retweeted
1/2 We're now living the dream of (almost) fully programmable protein design. Learning about BindCraft is now essential 🧐
nitter.cf/miangoar/status/196079…
Code to complex: AI-driven de novo binder design
pubmed.ncbi.nlm.nih.gov/4089…
Thanks to @MartinPacesa, Lennart N., and @AriaxBio :)
1/13 🧵 Today, Bindcraft was published in @Nature , one of the most famous AIs in biology for designing protein–protein interactions (PPI). In my opinion. Bindcraft represents one of the most important advances in the post–AlphaFold2 era.
Ariax Bio retweeted
We were so excited to meet and discuss with the protein community in Mexico, it was a great experience and we saw many great BindCraft designs generated in just one day session! Thanks to @aaronmring’s amazing @AriaxBio platform that made running it easier with so many teams
Waiting days for BindCraft results? Not anymore.
Turbo Mode splits your job across multiple GPUs for up to 8x faster completion. A typical 48-hour campaign now finishes in 6 hours: ariax.bio/resources/turbo-mo…
Preparing PDB files for protein design usually means wrestling with PyMOL or ChimeraX. We're making it easier.
Watch us use our new Prep Inputs feature to go from PDB fetch → structure trimming → hotspot selection → launching a design job in a leisurely 75 seconds.
Prep Inputs handles the tedious parts:
Load structures from RCSB or local files (PDB or CIF)
Trim chains & residues visually
Auto-detect binding interfaces
Export BindCraft-ready PDBs or start the job at Ariax
Free to use and everything runs locally in your browser.
Ariax Bio retweeted
pH gradients are central to physiology, from vesicle acidification to the acidic tumor microenvironment. But how do we program proteins to respond to pH? In our new preprint biorxiv.org/content/10.1101/…, we developed computational methods to rationally design pH-sensitive binders. 🧵
Very exciting platform, extending BindCraft-style design to antibodies. Spinning it up for testing now...