iiinova — where your digital self keeps evolving

Daniel Keedy @dkeedy.bsky.social · 04/06/2026

More evidence that the @asrc-gc.bsky.social is a special place! I’m happy to play a small part in this bigger picture.

Daniel Keedy @dkeedy.bsky.social · 03/06/2026

It was a true pleasure to catch up multiple eras of RLabbers at "Richardson Fest" this weekend! 20+ of us spoke about the impact Dave & Jane had on us. They are titans of the field of structural biology -- yet intimately focused on the small things in life... Wonderful people all-around!

Daniel giving a nostalgic talk about the RLab, including an "RLabbey Road" slide

Terry Oas and Jane enjoying a chuckle near the end of Richardson Fest

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Daniel Keedy @dkeedy.bsky.social · 02/06/2026

Pleased to report my lab's new NSF CAREER award to dissect how motions underlie function in natural vs. designed proteins: www.nsf.gov/awardsearch/... I do not take this federal support of our science lightly! @asrc-gc.bsky.social @ccnyscience.bsky.social @cuny.edu = excellent place for this work.

nsf.gov

Award Details - NSF Award Search

Find award details and explore award abstracts and publications.

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Daniel Keedy @dkeedy.bsky.social · 24/04/2026

Julia Zhang & I just wrote our lab's second @prereview.bsky.social "pre-review"! It covers a really impressive preprint by Anum Glasgow & crew, just a few blocks north of us. We forgot to use the phrase "tour de force" but that feels applicable. Here's the link: prereview.org/reviews/1971...

prereview.org

PREreview of “Distinct energetic blueprints diversify function of conserved protein folds”

Authored by Daniel Keedy and Julia Zhang

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Admirable Women @admirablewomen.bsky.social · 26/01/2026

Jane Richardson was born #OTD in 1941 + Developed the Richardson (ribbon) diagram to represent proteins' 3D structure (becoming a standard representation for protein structures) + MacArthur Fellow, 1985 + Elected, Nat'l Academy of Sciences, 1991 + President, Biophysical Society, 2012 #WomenInSTEM

Vibrant color portrait of Jane S. Richardson, the visionary biophysicist and artist who revolutionized structural biology with her invention of ribbon diagrams. She gazes warmly at the camera with a bright, knowing smile that radiates quiet brilliance and decades of curiosity. Her silver-blonde hair woven with gentle waves. Large, elegant dangling earrings catch the light, and she wears a richly patterned brown blouse embroidered with intricate turquoise paisley motifs and delicate beadwork that echoes the molecular elegance she has spent her life depicting. Behind her floats a luminous, dreamlike backdrop of glowing molecular structures--interlocking hexagonal and ribbon-like forms in electric blues, teals, and greens--blending science and art in a single, living canvas.

Hand-drawn and hand-colored (by Jane Richardson) scientific artwork known as a Richardson ribbon diagram (or “ribbon model”), one of the iconic visual inventions of Jane Richardson that transformed the way we see and understand protein structures. A graceful, three-dimensional tangle of protein backbone ribbons twists and spirals through space, rendered in soft pencil lines and luminous watercolor hues. Smooth golden-brown coils represent α-helices that curl like elegant ribbons, while broad teal-green arrows trace the flat, pleated strands of β-sheets slicing through the molecule with directional purpose. Thin, looping golden threads connect the secondary structures, creating a delicate, almost dance-like choreography of biology’s hidden architecture. The entire form is framed by a simple olive-green mat and dark border, giving the drawing the quiet dignity of both fine art and precise scientific illustration—a timeless bridge between molecular reality and human imagination.

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Stephanie Wankowicz @stephanieaw.bsky.social · 01/12/2025

New preprint! Entropy drives molecular recognition, yet most structure-based drug design ignores it because it is difficult to measure. X-ray crystallography captures ensembles, not single structures. Can we extract thermodynamically meaningful entropy from them? www.biorxiv.org/content/10.1...

biorxiv.org

Crystallographic Ensembles Reveal the Structural Basis of Binding Entropy in SARS-CoV2 Macrodomain

Structure-based drug design has traditionally focused on optimizing static, enthalpic interactions between ligands and proteins or on displacing binding site solvent molecules to entropically favor bi...

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Daniel Keedy @dkeedy.bsky.social · 05/11/2025

Props to my colleague here at the @asrc-gc.bsky.social , @fravallese.bsky.social , for this wonderful piece about the uniquely strong structural biology community here in NYC. I often feel lucky to be here. Let's keep up the good vibes and forward momentum -- exciting times for struct bio!

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Daniel Keedy @dkeedy.bsky.social · 02/09/2025

I'm pleased to report that my job title has changed! (Except for the 1st 3 letters of the 1st word & the entire 2nd word... 😉) keedylab.org/members/ Grateful that I get to do fun science & train young scientists in an inspiring environment here at @asrc-gc.bsky.social & @ccnyscience.bsky.social!

keedylab.org

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Daniel Keedy @dkeedy.bsky.social · 13/08/2025

Summer 2025 #keedylab news round-up: come read about what we did on our summer vacation! keedylab.org/news/ Associated with this website update, I also embedded the lab's Bluesky feed on the website's news page -- thus creating an infinite cycle of delightful lab news links 🔁 💯

keedylab.org

News | Keedy Lab

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Daniel Keedy @dkeedy.bsky.social · 06/08/2025

We wrote a review article about dynamics, allostery, and function in the PTP enzyme family! Covers experimental and computational approaches, regulatory domains & mechanisms, mutations, ligands, etc. Was hard to fit in ~all the cool advances in recent years!... pmc.ncbi.nlm.nih.gov/articles/PMC...

pmc.ncbi.nlm.nih.gov

Orchestrating function: concerted dynamics, allostery, and catalysis in protein tyrosine phosphatases

Protein tyrosine phosphatases (PTPs) are a family of enzymes that play critical roles in intracellular signaling and regulation. PTPs are conformationally dynamic, exhibiting motions of catalytic loop...

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Indivisible ❌👑 @indivisible.org · 12/06/2025

250 years ago, Americans rejected the rule of a mad king. In two days, we’re taking to the streets again to say NO KINGS. 2,000 peaceful protests are planned in small towns and major cities across the country. Join your community on Saturday for #NoKings Day: www.nokings.org?SQF_SOURCE=i...

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James Fraser @fraserlab.com · 20/05/2025

We are looking to hire (yes, even in this economy!) a jr. specialist to train in protein prep/structural biology related to our AVOID-ome work as part of openadmet.org. A great position for someone who is looking to be a tech for a few years before grad or med school. aprecruit.ucsf.edu/JPF05424

aprecruit.ucsf.edu

Junior/Assistant/Associate/Full Specialist Positions Available

University of California, San Francisco is hiring. Apply now!

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Stephanie Wankowicz @stephanieaw.bsky.social · 16/05/2025

The third episode of The Tortured Proteins Department is out now! We chatted about grant cancellations, exciting regional meetings and reunions, two fun new preprints, community norms around code release, and the importance of giving kudos. @fraserlab.com

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Jeremy Berg @jeremymberg.bsky.social · 28/04/2025

Definitely worth a read and a share...

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Advanced Science Research Center at the CUNY Graduate Center @asrc-gc.bsky.social · 21/04/2025

We're hiring for three positions: Asst./Assoc./Prof. of Neuroscience: bit.ly/43ScWzE Research Associate in the MRI Facility: bit.ly/3Ey1ONY Asst./Assoc./Prof. of Photonics: bit.ly/4ijNVkh

A photo of the CUNY ASRC's exterior and the following text: "We are hiring a research assoc. and profs."

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Reposted by Daniel Keedy

Danielle Beckman @daniellebeckman.bsky.social · 19/02/2025

Nothing else to say.

"If you think research is expensive, try disease" - Mary Lasker

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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 14/02/2024

Roses are red Violets are blue If you fall in love with your hypothesis You’ll be biased to prove it true 🧪

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Stephanie Wankowicz @stephanieaw.bsky.social · 21/01/2025

Are you interested in understanding how the wiggles & jiggles of proteins impact the thermodynamics of ligand binding or catalysis? Well, you are in luck! We are searching for a postdoc to explore these concepts. More details: www.vanderbilt.edu/postdoc/pros... or email stephanie@wankowiczlab.com

vanderbilt.edu

Current Opportunities at Vanderbilt

Vanderbilt is committed to providing a meaningful, robust experience for postdocs. Below is a list of currently available postdoctoral opportunities. Postdocs interested in applying for a specific pos...

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Reposted by Daniel Keedy

Advanced Science Research Center at the CUNY Graduate Center @asrc-gc.bsky.social · 11/12/2024

"Being a first-generation college student, I’m excited by the idea of training & mentoring other first-generation students & taking on this important responsibility." —Prof. Francesca Vallese. Get to know SBI's new member & her critical area of research. bit.ly/3UYHKcN @thegraduatecenter.bsky.social

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Daniel Keedy @dkeedy.bsky.social · 21/11/2024

Check out our lab's first pub since the great X->Bsky exodus! We used crystallography under different conditions to map new conformational & chemical features of an atypical phosphatase enzyme. Fantastic work by Liliana, Ali, and Blake as well as collabs near (Bishop) & far (Tautz)!

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Daniel Keedy @dkeedy.bsky.social · 08/08/2024

I'm excited to share our lab's latest @biorxiv-biophys.bsky.social preprint: www.biorxiv.org/content/10.1... This was a really rewarding collaboration between many folks here at the CUNY ASRC and the Farooqi lab at Cambridge, bridging the human genetics of obesity and some cool molecular biophysics!

biorxiv.org

Structures of human PTP1B variants reveal allosteric sites to target for weight loss therapy

bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution

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Stephanie Wankowicz @stephanieaw.bsky.social · 11/05/2024

We were incredibly disappointed with the lack of code or executable accompanying the publication of AF3 in @Nature . This contradicts scientific principles of the ability to evaluate, use, and build upon existing work. zenodo.org/records/1117.... Sign to endorse: docs.google.com/forms/d/e/1F...

zenodo.org

AlphaFold3 Transparency and Reproducibility

Link for endorsement signatures: https://forms.gle/d47w29eGHeL1ejXw9

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Daniel Keedy @dkeedy.bsky.social · 05/04/2024

Earthquake just now in upper Manhattan... Biggest I've ever felt (and I lived in the Bay Area for 5 years)... Reports of the same thing simultaneously in Queens... Everyone here is safe!...

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Daniel Keedy @dkeedy.bsky.social · 24/03/2024

Got back last night from a great visit to Baylor Chemistry & Biochemistry! Thanks to Jonathan Clinger for inviting + hosting -- and was nice to meet @trakselis.bsky.social (& many others not on Bsky)!

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Daniel Keedy @dkeedy.bsky.social · 10/03/2024

Just returned from a wonderful visit to UC Irvine Molecular Biology & Biochemistry! Was nice to be back in the UC system for a day, meet many great folks doing cool science, and get to talk about what we've been up to in the Keedy lab. Special thanks to Melanie Cocco for hosting!

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M. Eugenio Vazquez @glowsticks.bsky.social · 05/02/2024

This is the 1957 plasticine model of myoglobin by Kendrew. It is based on X-ray data and shows the polypeptide chain as a large 💩. It is an aesthetic failure but, as the first-ever protein model, it was a huge breakthrough in protein structure 🙂 collection.sciencemuseumgroup.org.uk/objects/co13...

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Daniel Keedy @dkeedy.bsky.social · 30/01/2024

'024 New Year lab news roundup: keedylab.org/news/ It's not too late to say Happy New Year yet, right?!

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Ben Barad @baradlab.com · 24/01/2024

The Barad lab is hiring across all levels. Open positions here: baradlab.com/join/. If you are interested in doing cutting edge tomography and computational methods development to study intracellular bacterial infection, and living in Portland, OR, but don't fit the openings, reach out anyway!

baradlab.com

Join the Barad Lab

The Barad Lab is a cryo-electron tomography and computational structural biology lab at Oregon Health & Science University

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Daniel Keedy @dkeedy.bsky.social · 12/01/2024

When it rains, it pours... Another '024 lab paper update! Our comparison of high temperature vs. high pressure for the same protein structure is now out in Comms Bio: www.nature.com/articles/s42...

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Daniel Keedy @dkeedy.bsky.social · 08/01/2024

The #keedylab '024 paper deluge continues! Tamar and I worked with Helen to computationally reveal, model, and analyze 50% more ligand-bound structures that had been lurking unnoticed in our fragment screening data. Here's the @biorxiv-biophys.bsky.social preprint: www.biorxiv.org/content/10.1...

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Daniel Keedy @dkeedy.bsky.social · 06/01/2024

First #keedylab paper of '024! Our paper on "high-resolution double vision" of PTP1B is out now in Acta Cryst F, with some nice improvements over the @biorxiv-biophys.bsky.social version. Check it out here: doi.org/10.1107/s205...

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