Intelligencefor structural biology

Reason about proteins using chemistry, function and provenance.

From semantic protein search to structure-aware reasoning.

The challenge

Biological data is fragmented and non-textual

Language models excel at text, but structural biology lives in scattered metadata, 3D coordinates, and complex experimental records.

Fragmented knowledge

Critical biological information is buried across datasets, annotations, literature, experimental conditions, and classifications. Context gets lost.

Hidden similarities

Semantic relationships between ligands, functions, and biological contexts remain invisible to keyword searches.

Non-textual data

Protein structures and spatial features cannot be processed by standard language models. The richest biological data remains inaccessible.

First, make PDB queryable

Semantic search that understands biochemical context, not just keywords

Ask natural questions

Instead of rigid BLAST queries or keyword filters, describe what you need: binding sites, crystallization conditions, ligand contexts, functional properties.

Our search engine understands the semantic relationships between experimental metadata, structural features, and biological functions, bridging scattered PDB annotations into coherent, ranked results.

Example query:
"zinc finger motif that binds RNA, crystallized near neutral pH"Try it
Returns:
• Human-readable snippets explaining the match
• Ligand chemistry & experimental details
Live

PDB Semantic Search

Query 240,000+ protein structures using natural language.
Get ranked results that understand biochemical context, not just exact keyword matches.

Functional annotations
Ligand chemistry
Organism & source
Experimental details

Built for experts: results include source snippets and direct provenance links.

What's next

Beyond search,the AI operating layer for biology

Semantic search solves retrieval.
But computational biology needs more: navigating 3D structures, connecting experimental context to design decisions, and navigating biochemical constraints.

Structural reasoning
Navigate 3D protein space with AI that understands geometry.
Agentic workflows
Tools that plan, retrieve, and synthesize, not just answer.
Fact grounded
Every insight traces to real data. No hallucinations.

Get early access

Join structural biologists, computational chemists, and biotech researchers shaping what comes next. First access to new capabilities, direct input on roadmap, and design partner opportunities.

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Let's collaborate

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