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 colleagues in regular update meetings
Qualifications
PhD (or equivalent industry experience) in computer science, computational biology, biophysics, or a related field
Hands-on experience building and training biomolecular structure prediction models (e.g., AlphaFold- or Protenix-style co-folding models) at a leading academic or industry lab
Publications at major ML conferences (NeurIPS, ICML, ICLR) or top science journals, or widely used open-source models
Experience with deep learning frameworks such as PyTorch or JAX, including multi-GPU training
Preferences
Experience modeling antibody structure and antibody–antigen docking, including CDR loop modeling and epitope prediction
Experience modeling protein–DNA or protein–RNA complexes
Deep familiarity with structural data pipelines: mmCIF processing, MSA and template search, structural clustering, and dataset splitting
Experience with diffusion or flow-matching models for structure generation or structure-conditioned design
Experience with large-scale distributed training and cloud compute
Familiarity with experimental structural and binding data (cryo-EM, crystallography, display-based binding assays)
What We Offer
High-growth opportunity with meaningful impact on the future of protein design
Competitive compensation package with equity participation
401(k) with a strong employer match
Comprehensive benefits including health/dental/vision insurance
Generous PTO policy and commitment to work-life balance
Professional development opportunities in a cutting-edge field at the intersection of AI and biology
Profluent Bio, Inc is an equal opportunity employer promoting diversity and inclusion in the workspace. We do not discriminate on the basis of race, color, religion, marital status, age, national origin, ancestry, physical or mental disability, medical conditions, veteran status, sexual orientation, gender (including gender identity and gender expression), sex (which includes pregnancy, childbirth, and breastfeeding), genetic information, taking or requesting statutorily protected leave, or any other basis protected by law.
Employment Eligibility Verification
Legal authorization to work in the United States is required. In compliance with federal law, all persons hired must verify their identity and work eligibility and complete the required employment verification form upon hire.
Hiring Salary Range
$212,000—$339,000 USD
NOTICE TO STAFFING AND SEARCH FIRMS: Profluent does not accept unsolicited candidate submissions. We ask that agencies refrain from sending resumes to our careers inbox, hiring managers, or any Profluent employee. Any resume submitted without a signed agreement and an active search request from our Talent team will be treated as the property of Profluent, and no placement fee will be owed.
