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Director, Protein Science

Alloy Therapeutics

Waltham, MA · $170k–$200k a year · Posted September 5, 2026

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About the job

Role Location: Waltham, MA

The Company We are Alloy Therapeutics — a biotechnology ecosystem and Product Development Organization (PDO) empowering the global scientific community to make better medicines together. Through a community of partners, we democratize access to pre-competitive tools, technologies, services, and company creation capabilities that are foundational for discovering and developing therapeutic biologics. The company facilitates affordable, non-exclusive access to the entire drug discovery community from academic scientists, small and medium biotech, to the largest biopharma. At Alloy, we believe our industry should compete on getting the best drugs to patients as quickly as possible, not exclusive access to the best platforms. As a reflection of our relentless commitment to the scientific community, we reinvest 100% of our revenue in innovation and access to innovation. May the Best Drug Win.

Alloy has evolved from a startup into a global product development organization operating 11 divisions across 5 research sites in 4 countries on 3 continents. Our model - Integrated Independence - combines centralized capabilities with entrepreneurial operating divisions. Successful members thrive in our shared culture of accountability, deliberate trust, and open communication. As a team we aspire to work together to exceed expectations and collectively contribute across the global organization to always maintain our nimble, startup culture.

At Alloy, we have an ethos of "Mentorship-By-Apprenticeship" in all of our positions. We strive to have workers in the office when needed to interact organically and face-to-face. Of course, as a lab-based operation, our cells and animals grow 7 days a week, 365 days per year. We respect and value our colleagues for their hard work that requires them to be in the lab every day. We ask our people who have more flexible accommodations to appreciate their colleagues who have less flexibility. We are all one team!

About the Role at Alloy Therapeutics As Director of Protein Science, you will lead a team responsible for high-throughput mammalian protein production and mg-scale expression in support of therapeutic programs. In this role you will leverage antibody building blocks to create multi-specific antibody formats that custom fit the needs of our mechanistically-diverse partner base, from large pharma companies to emerging biotech companies and academic collaborators.

You will work closely with the discovery, analytics and pharmacology teams to review data in real time and make the necessary scientific adjustments to ensure a successful campaign. In addition, you will serve as a project leader overseeing the on-time completion of project activities, accomplishing shared objectives, and meeting rigorous partner timelines.

Strong communication skills are essential for this role, as you will interact with a diverse group of stakeholders both within and outside the company. You will also be accountable for high-quality partner communication throughout the project life cycles, including drafting research proposals, updating project status and timelines, and presenting final deliveries. In parallel, you will provide regular project updates and presentations to internal stakeholders to ensure alignment with project goals and timelines and addressing any potential issues or concerns promptly.

This role will report directly to the site head Antibody-Powered Division Waltham, MA, with autonomy owning various stakeholders, projects, and tasks in a dynamic start-up environment while keeping up the pace of Alloy.

How You’ll Drive Impact Drive : Scientific direction and execution of monoclonal discovery and multispecific engineering campaigns.

Innovate : Ensure the application of cutting-edge technologies and methodologies in protein expression.

Collaborate : Integrate protein engineering and cutting-edge efforts efficiently into product offerings and engage with external collaborators in discovery of biologics.

Deliver : Efficient execution of partner projects balancing quality, timelines, and costs, while ensuring successful completion of therapeutic discovery that meet our partners’ objectives.

Lead : Marshal, inspire, and mentor a cross-functional team of scientists. Lead by example by going the extra mile to ensure we are successful delivering on projects.

Communicate : Communicate effectively with key stakeholders externally and internally, fostering productive interactions both upward and downward, and across teams at different sites.

Key Responsibilities Lead and grow a team of protein scientists

Own molecular biology, antibody expression, purification, and quality control workflows

Engage prospective customers to articulate multispecific antibody production strategies

Deliver high-throughput and mg-scale antibody production runs successfully and on time

Drive major decisions, balance tradeoffs and resolve technical issues with projects

Lead process improvement initiatives across the antibody-powered division

Ensure rigorous data capture in ELN/LIMS systems

Bring innovative scientific and technological solutions to increase business competitiveness of bispecific service offerings

Qualifications You have a PhD in a relevant scientific field (e.g. Biochemistry, Biophysics, Molecular Biology, etc) with a minimum of 8 years of industry experience in antibody or protein engineering, or a master’s degree with 12+ years of relevant industry experience.

You have a track record leading protein expression, purification, and characterization functions supporting drug discovery

You have hands-on depth in recombinant mammalian protein expression systems </span