profluent · Emeryville, California, United States
Profluent is the frontier AI lab for biology. Profluent builds powerful foundation models for all of life's molecules, unlocking solutions that transform medicine, agriculture, and beyond. Founded in 2022 and headquartered in Emeryville, CA, Profluent is backed by leading investors including Altimeter Capital, Bezos Expeditions, Spark Capital, Insight Partners, Air Street Capital, AIX Ventures, and Convergent Ventures and has raised over $150M to date. We're looking for a motivated and creative Machine Learning (ML) Scientist to drive research into biomolecular structure prediction. You will build and improve all-atom co-folding models, with a focus on the complexes that matter most to our programs: antibody–antigen interfaces and protein–nucleic acid assemblies. These remain among the hardest cases for current models, and closing that gap directly accelerates our antibody design and genome editing work. The ideal candidate has trained structure prediction models at a leading academic or industry lab and knows where today's models break. You will be a self-directed researcher who moves quickly from hypothesis to trained model to rigorous evaluation. As an early member of the ML team, you will help shape how structure modeling fits alongside our generative models (ProGen3, E1) and experimental platforms. Responsibilities Develop and train all-atom structure prediction models, improving accuracy on antibody–antigen and protein–nucleic acid complexes Diagnose failure modes of current models (e.g., CDR-H3 and epitope placement, interface geometry, nucleic acid conformations, confidence calibration) and design architecture, training, and data interventions to address them Curate large-scale training data from structural databases, distillation sets, and Profluent's own experimental binding and function data Integrate structure models with our generative models for design and filtering, and work with protein design teams on experimental validation Present results to colle…
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