ProxAI
AI Generated Protein Binder
Protein Function Engineering

DESIGN.
MODULATE.
VALIDATE.

Engineer binders to intercept a single protein-protein interface, leaving the remaining functions of your target intact. Cell-validated and computationally designed—no pocket required.

Get Your Free Feasibility Review
Q3 2026 Intake Open Only 4 pilot slots remaining
Institutional Anchors & Collaborators
IRCM
D3
UdeM
&
McGill

Too Blunt to Study.
Too Flat to Drug.

The Knockout Problem

Blunt
Tool.

Your target has five functional domains. You need to study one. A genetic knockout eliminates them all, making precise biological attribution impossible.

The Small Molecule Problem

Featureless
Surface.

Your interface has no grooves, no pockets, and no druggable features. Years of high-throughput small-molecule screening returned nothing.

A ProxAI Binder Solves Both.

One Interface
One Function
Cell-Validated
End-To-End Execution

The Discovery Process

A highly reproducible milestone framework tailored to your program's specific binding parameters. Progress is measured by data generation, not arbitrary timelines.

Phase 01 Intake

Target Mapping

Partners securely upload structural files via our air-gapped intake portal. The ProxAI engine maps the exact geometric coordinates and uncovers hidden interaction hotspots on flat surfaces.

Key Milestone: Complete interface topology profile and custom chassis selection.
Phase 02 Dry-Lab

Generative Design

Our deep learning models generate over 100,000 completely de novo candidate sequences custom-tailored to bind exclusively with the identified hotspot geometry.

Key Milestone: High-diversity barcoded sequence library generation.
Phase 03 Wet-Lab

Assay Screening

The library shifts to physical cell systems. Using automated multi-parameter FACS tracking, we screen millions of cellular variants in real-time, pulling out elite binders.

Key Milestone: Next-Generation Sequencing (NGS) code recovery of real hits.
Phase 04 Delivery

Lead Handover

Top binder assets undergo meticulous characterization, and cross-reactive safety assays to ensure absolute specificity. Access data through our secured portal.

Key Milestone: Validated, sequence-complete lead candidate package delivery.

Your Target.
Your Program.

Not catalog-first. Target-first.
Four chassis, chosen strictly on the merits of your binding interface.

Binder Repertoire
Antibody Fragments
Chassis 01

Antibody

Fab / scFv designs with established manufacturing and regulatory precedent.

Best For: Extracellular targets and therapeutic translation.
Use Cases:
IND-enabling biologic Therapeutic translation
Nanobodies
Chassis 02

Nanobody

Single-domain VHH framework with camelid-derived loop flexibility.

Best For: Concave epitopes, cryptic pockets, intrabody applications.
Use Cases:
Cryptic epitope bioPROTAC mRNA-ENCODED
Minibinders
Chassis 03

Minibinders

De novo scaffolds offering high stability and precise interface targeting.

Best For: Compact and hydrophobic interfaces. Highly stable.
Use Cases:
PPI disruptor Intracellular bioPROTAC mRNA-ENCODED
Cyclic Peptides
Chassis 04

Cyclic Peptides

Constrained macrocycles with cell permeability and oral bioavailability potential.

Best For: Flat PPI interfaces and shallow groove binding.
Use Cases:
Allosteric ligand Payload vector (PDC)
Wet-Lab Integration Loop

The Screening Pipeline

Bypassing manual, low-throughput structural verification. We translate digital sequence libraries into dense, physical assay matrices to fish out elite binders at unmatched scale.

10⁶ Library Diversity
NGS Parallel Decoding
High-Throughput Assay Screening Loop
Screening Vector Automated Microfluidic Array
Active
01

Library Synthesis

Digital sequence outputs from our engine are compiled into physical high-density oligo pools. Every de novo candidate is tagged with a unique, traceable molecular DNA barcode.

02

Cellular Display

Barcoded libraries are cloned directly into expression vectors. Host cell systems process the library, displaying thousands of custom-engineered binder chassis simultaneously across the living membrane.

03

FACS Selection Core Vector

Fluorescence-Activated Cell Sorting profiles cellular bindings at high velocity (up to 70k events/sec). Binders are partitioned dynamically based on precise affinity thresholds and strict off-target cross-reactivity boundaries.

04

NGS Decoding

Sorted high-affinity cells undergo deep Next-Generation Sequencing. The molecular barcodes are decrypted to map the exact chemical structures and output a complete biophysical hit package.

Versatile Modulations

Exploiting native cellular regulation mechanisms. We engineer high-precision binders to execute two completely distinct therapeutic modalities.

PPI Inhibition
Modulator 01

PPI Inhibition

Direct, high-affinity competitive disruption of targeted protein-protein interaction interfaces. Our binders act as physical shields, shutting down down-stream oncogenic signaling across traditionally undruggable flat surfaces.

Applicable Architectures:
Minibinders Cyclic Peptides Nanobodies
Induced Proximity
Modulator 02

Induced Proximity

Bifunctional chimera systems that hijack native cell biology. By mechanically cross-linking your target straight to intracellular degradation machineries, we achieve complete catalytic elimination of the target protein.

Supported Pathways:
bioPROTAC (Proteasomal) LYTAC (Endo-Lysosomal) AUTAC (Autophagy)

Platform
Benchmarks

Real-time performance metrics from the ProxAI Engine. From sequence design to Validated Lead in < 12 weeks.

100k+ Designs/Cycle
150pM Target KD

Kinetic Benchmark: CDC20

File: CDC20_WD40_VALIDATION ● System Live
150.4 pM Binding Affinity (KD)
Association 4.2e5
Dissociation 6.3e-5
R-Max 124 RU

Structural Precision

Ref: X-RAY_CRYSTALLOGRAPHY_0.72A Validated

Structural Precision

Comparing AI-Fold to Ground Truth

0.72 Å Mean RMSD

Scientific
Team

Engineered by pioneers at the intersection of generative deep learning and cell biology. Backed by industry-leading clinical translational expertise.

Dr. Jonathan Boulais
ID: 001_FOUNDER

Dr. Jonathan Boulais

Chief Executive Officer

Architect of the ProxAI generative engine. Computational cell biologist specializing in Protein-Protein interactions and proteomics data analysis.

PhD Ex-GSK Ex-IRCM
Dr. Luc English
ID: 002_FOUNDER

Dr. Luc English

Chief Scientific Officer

Pioneer in protein degradation and immunology. Leads the high-throughput experimental validation loop for all in-house modalities.

PhD LOGIAG Bioprevox
Dr. François-Thomas Michaud
AUTH: SA_MEMBER

Dr. François-Thomas Michaud

Scientific & Business Advisor

Guides late-stage lead optimization and IND-enabling strategies. Provides business guidance.

PhD CEO @Feldan BIOQuebec
Dr. Michel Desjardins
AUTH: SA_MEMBER

Dr. Michel Desjardins

Scientific Advisor

Full professor at the University of Montreal. Leader in immunology and Parkinson's disease research.

PhD UdeM ASAP
Dr. Jean-François Côté
AUTH: SA_MEMBER

Dr. Jean-François Côté

Scientific Advisor

President and Scientific Director at the IRCM. Full professor at the University of Montreal. Leader in interactomics and oncology research.

PhD IRCM UdeM
Dr. Mika Guérard
AUTH: SA_MEMBER

Dr. Mika Guérard

Scientific & Business Advisor

Guides late-stage lead optimization and IND-enabling strategies for induced proximity targets.

PhD RBCx Axelys Neolys
Marina Massingham
AUTH: SA_MEMBER

Marina Massingham

Business Advisor

Seasoned leader with broad experience across strategy, marketing, talent management, and operational roles within the digital health, biotech, and pharmaceutical industries.

MSc CEO @Aifred TeOra Health District3
Margaret Bywater-Ekegard
AUTH: SA_MEMBER

Margareth Bywater-Ekegard

Scientific & Business Advisor

Seasoned biotech entrepreneur with 30+ years founding, scaling, and commercializing innovative life science technologies. Leader in industrialization and market launches.

Inocucor Tech Morphocell District3
Collaboration Framework

Partnership Models

Flexible, value-aligned alignment structures built for global pharma and emerging biotech discovery pipelines.

Model 01

Asset Co-Development

Partner provides the therapeutic target structure; ProxAI delivers cell-validated lead candidate packages. Shared risk, milestone-driven structures optimized for rapid pipeline expansion.

Ideal For: Biotech teams seeking rapid hit-to-lead generation against high-value PPI targets without scaling internal dry-lab infrastructure.
Model 02

Platform Licensing

Enterprise access to the ProxAI structural generation engine. Deploy our pre-trained generative networks directly inside your internal compute clusters to power scaled multi-target campaigns.

Ideal For: Large pharma organizations with scaled in-house wet-lab screening automation wanting to feed proprietary targets through a custom deep-learning loop.
IP Protection Protocol

Siloed Security

Your structural target data never enters public models. Every partnership campaign runs inside an isolated, air-gapped container environment.

  • Zero-Knowledge Compute Infrastructure
  • Strictly Dedicated Client Instances
  • Permanent Ephemeral Target Deletion
Secure Communication Channel

Initiate a Partnership

Connect with our business development and scientific advisory teams. Submit your details below to schedule an exploratory briefing and initiate mutual NDAs.

Protocol: Encrypted Pre-NDA Channel