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3Dmol

3 posts tagged 3Dmol. ← Back to all posts

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devrel 3 antigravity 3 heat-protein-lab 3 science-skills 2 scrollytelling 2 heat-shock-response 2 gemini 1 no-bundler 1

Heat Protein Lab is live — what eight Antigravity sessions taught me about scientific UI

Heat Protein Lab is now public — eight chapters of scrollytelling about what heat does to human proteins, each anchored on a real protein with a real structure file, citations back-linked to PubMed, tissue claims sourced from the Human Protein Atlas, no analytics, no medical claims. This is the full ship retrospective: the chapters table, the phase-by-phase build log, what shipped vs what was cut, page weight, the Celsius/Fahrenheit toggle that landed two hours before publish, and what I would do differently if I started over.

15 min
antigravity heat-protein-lab science-skills +7

Visualizing what heat does to a protein, without running molecular dynamics

Chapter 4 of heat-protein-lab is the visual centerpiece — a real human enzyme (aldolase A, PDB 6XMH) that falls apart on the page as the reader scrolls. It is also the chapter most likely to mislead. This post is about how I drew the line in code between educational visualization and fake science: three discrete 3Dmol style stages (cartoon → ribbon → wireframe), atoms that never move, a VISUALIZATION-NOT-MOLECULAR-DYNAMICS badge pinned above the heading, and a readout panel with deliberately fuzzy quantities.

11 min
antigravity heat-protein-lab 3Dmol +6

Meeting HSF1 in Antigravity 2.0 — the first chapter shipped

The first chapter of heat-protein-lab is live. It introduces HSF1, the protein your cells use as a thermometer — rendered from a real PDB structure, citations pulled live through Google DeepMind's Science Skills bundle, tissue expression from the Human Protein Atlas across 49 tissues. This post is Phase 1, with three things worth a post on their own: a scientific correction the verification step caught (5D5W vs 5D5U), the build pattern (plain HTML/CSS, no bundler, gzipped mmCIF decoded in-page), and what the agy CLI stall taught me about prompts.

10 min
antigravity heat-protein-lab hsf1 +6