Senior Scientist I, Computational Protein Design
Generatebio Medicines · Somerville, MA
About this role
**Senior Scientist I, Computational Protein Design** **The Role** Generate is seeking a creative and rigorous scientist to develop computational technologies and lead applied platform research that expand what protein therapeutics can do. You will develop reusable methods, scoring and evaluation tools, model benchmarks, agentic systems, and scientific workflows for protein design, engineering, and optimization. Your work will span creating new proteins, modifying existing molecules, and integrating molecular components to unlock new therapeutic applications. At Generate, model development, protein design, high-throughput experimentation, structural characterization, and therapeutic development operate within one organization. This role offers the opportunity not only to advance computational methods, but to see them shape what proteins are built and tested, learn from rich in-house experimental data, and contribute to medicines in our pipeline. **How you will contribute** - **Lead technology development and applied platform research.** Identify high-value capability gaps and molecular or biological challenges, formulate testable hypotheses, and define research plans, milestones, and decision criteria. Drive projects from scientific question through computational implementation and experimental proof of concept to validated, reusable capabilities. - **Build and evaluate reusable protein engineering capabilities.** Develop computational methods for protein design, optimization, and interaction modeling using generative, predictive, and biophysical approaches. Create scores and benchmarks to assess sequences, structures, biological functions, and developability. Define intended uses, interfaces, assumptions, and success criteria across targets, molecular formats, and therapeutic applications. Build reproducible datasets and evaluation protocols that reveal strengths and failure modes, quantify uncertainty, and guide appropriate use. - **Engineer and validate new molecular capabilities.** Partner with assay, structural, and experimental scientists to design informative molecular libraries and iterative design-build-test-learn studies. Demonstrate control of properties such as binding specificity, conditional activity, molecular assembly, stability, or developability. Analyze experimental readouts, distinguish signal from noise, diagnose failures, and use the results to iterate.
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