Colin Hall Kalicki

What's the future of structural biology look like? Our very own reciprocal astronaut Alisia Fadini recently joined Jay Chodaparambil, @AdamsCioaba , @RoehmRobin and Derek Low for a panel on the future of SBDD in Boston at #IBA2026 to discuss exactly that!

We, @hlws_bot @PilarCossio2 @JiequnH, are sharing the official code release for EmbedOpt for seamless inference-time steering of protein diffusion models at github.com/rs-station/emb…, featuring: ✨ Tutorial on a real CryoEM map (EMDB-63136) (check out the animation below!). 📦 Environment locked with pixi for zero-headache reproducibility. 🛠️ Fully compatible with the new Protenix 2.0 codebase. 📊 All scripts to reproduce the paper's benchmark results are included out-of-the-box. We are also proud to host this under the Reciprocal Space Station (RSS, @open_rss)—our growing hub for open-source structural biology software! 🌌 Paper: arxiv.org/abs/2602.05285

We introduce ConforNets, a mechanism for conformational control in AlphaFold3 models - SoTA at producing diverse conformations on every multistate benchmark (N=104) - Novel capability: transfer state from one protein to another Outperforms BioEmu, ConforMix and AFsample3 🧵1/8

ROCKET came out on Nature Methods today. It takes a tremendous amount of effort to translate a research concept into a practical tool—one that researchers can seamlessly drop into their existing pipelines. We learned a lot along the path and will carry that spirit forward

ROCKET 🚀 inference-time optimization of AlphaFold to fit structural data is published! rdcu.be/fa9YH Since our preprint, we’ve pushed it to regimes where other methods break: low resolution, weak signal, real experimental edge cases. Here’s what we learned: 1/15

Huge resource for the community. Turning compute into data to train models to turn more compute into data...the cycle must go on x.com/i/status/20324…

New OpenFold3 preview out! (OF3p2) It closes the gap to AlphaFold3 for most modalities. Most critically, we're releasing everything, including training sets & configs, making OF3p2 the only current AF3-based model that is functionally trainable & reproducible from scratch🧵1/9

My birtbday present science.org/doi/10.1126/sc… The great news: we use ML and new data (secondary structure models) to narrow the generalization gap in RNA structure prediction. The sheety news: A key co-author @bongrandp is misspelled Pierre BongranT. With a T. Like some off‑brand detergent. Don’t ever let this PI (me) fill out the author list unsupervised. 💀

Does the noncoding genome actually carry more genetic information than coding seqs? Motivated by this question we mutated every bp in the 10kb MYC locus. Results are even more exciting: Decoding the MYC locus reveals a druggable ultraconserved RNA element biorxiv.org/content/10.648…

OpenFold3-preview (OF3p) is out: a sneak peek of our AF3-based structure prediction model. Our aim for OF3 is full AF3-parity for every modality. We now believe we have a clear path towards this goal and are releasing OF3p to enable building in the OF3 ecosystem. More👇