Senior Scientist, Computational Protein Design

<p><strong><span data-contrast="auto">About Abiologics</span></strong><span data-ccp-props="{"335559739":0}"> </span></p> <p><span data-contrast="auto">Abiologics is a Flagship Pioneering company developing </span><strong><span data-contrast="auto">Synteins™</span></strong><span data-contrast="auto"> — a transformative class of fully synthetic proteins composed entirely of artificial building blocks such as D-amino acids and non-canonical residues. Synteins</span><span data-contrast="auto"><span data-fontsize="12">TM</span></span><span data-contrast="auto"> are designed to transcend the limitations of traditional biologics, with improved oral stability, immune evasion, and metabolic durability — all while being fully programmable by design.</span><span data-ccp-props="{"335559739":0}"> </span></p> <p><span data-contrast="auto">Powered by a proprietary AI-enabled discovery platform, Abiologics integrates </span><strong><span data-contrast="auto">generative design</span></strong><span data-contrast="auto">, </span><strong><span data-contrast="auto">automated synthesis</span></strong><span data-contrast="auto">, and </span><strong><span data-contrast="auto">rapid experimental screening</span></strong><span data-contrast="auto"> to enable iterative optimization at scale.</span><span data-ccp-props="{"335559739":0}"> </span></p> <p><strong><span data-contrast="auto">Position Summary</span></strong><span data-ccp-props="{"335559739":0}"> </span></p> <p><span data-contrast="auto">We are seeking a </span><strong><span data-contrast="auto">Protein Design Scientist</span></strong><span data-contrast="auto"> to join the Computational Protein Design team and help drive structure-based design and optimization of synthetic proteins. This is a highly interdisciplinary role at the interface of computational design, structural biology, and protein engineering.</span><span data-ccp-props="{"335559739":0}"> </span></p> <p><span data-contrast="auto">Ideal candidates have deep experience in </span><strong><span data-contrast="auto">de novo protein design</span></strong><span data-contrast="auto">, </span><strong><span data-contrast="auto">miniproteins</span></strong><span data-contrast="auto">, and </span><strong><span data-contrast="auto">binders engineering</span></strong><span data-contrast="auto"> and are eager to push the boundaries of non-natural protein design in a fast-moving, data-rich environment.</span><span data-ccp-props="{"335559739":0}"> </span></p> <p><strong><span data-contrast="auto">Key Responsibilities</span></strong><span data-ccp-props="{"335559739":0}"> </span></p> <ul> <li><span data-contrast="auto">Design and execute Synteins</span><span data-contrast="auto"><span data-fontsize="12">TM</span></span><span data-contrast="auto"> engineering campaigns to generate drug candidates.</span><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Create computational design strategies to deliver drug candidates drawing from array of ML tools and Rosetta scripts.</span><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Collaborate with computation, chemistry, and experimental biology teams to optimize designs for function, solubility, and stability.</span><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Integrate structural and biophysical data (e.g., binding, CD, HDX-MS, CryoEM) into iterative optimization cycles</span><span data-ccp-props="{"335559739":0}"> </span></li> </ul> <p><strong><span data-contrast="auto">Qualifications</span></strong><span data-ccp-props="{"335559739":0}"> </span></p> <p><em><span data-contrast="auto">Required</span><span data-ccp-props="{"335559739":0}"> </span></em></p> <ul> <li><span data-contrast="auto">PhD in structural biology, biophysics, protein design, or related field</span><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">2+ years of hands-on experience in </span><strong><span data-contrast="auto">structure-guided protein design</span></strong><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Demonstrated proficiency with modern structure prediction and design tools such as RFdiffusion, proteinMPNN, AF2, Boltz2, BoltzGen, Rosetta or equivalent SOTA tools for in-silico protein engineering.</span><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Strong understanding of the biophysics of protein folding and interface energetics</span><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Demonstrated ability to progress designs from concept to experimental testing</span><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Excellent communication skills </span><span data-ccp-props="{"335559739":0}"> </span></li> </ul> <p><em><span data-contrast="auto">Preferred</span><span data-ccp-props="{"335559739":0}"> </span></em></p> <ul> <li><span data-contrast="auto">Experience designing </span><strong><span data-contrast="auto">minibinders or proteins <100 AAs</span></strong><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Familiarity with non-canonical amino acid design</span><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Familiarity with molecular dynamics tools.</span><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Exposure to high-throughput or automated protein engineering environments</span><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Prior work on platform-based or early-stage biotech teams</span><span data-ccp-props="{"335559739":0}"> </span></li> </ul> <p><strong><span data-contrast="auto">Why Join Abiologics</span></strong><span data-ccp-props="{"335559739":0}"> </span></p> <ul> <li><span data-contrast="auto">Help invent a </span><strong><span data-contrast="auto">new class of programmable synthetic proteins</span></strong><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Be part of a </span><strong><span data-contrast="auto">high-velocity discovery platform</span></strong><span data-contrast="auto"> with real-time synthesis and screening</span><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Collaborate with a deeply interdisciplinary, mission-driven team</span><span data-ccp-props="{"335559739":0}"> </span></li> <li><span data-contrast="auto">Redefine the limits of what proteins can do</span><span data-ccp-props="{"335559739":0}"> </span></li> </ul> <p><strong>ABOUT FLAGSHIP PIONEERING:</strong></p> <div class="page"> <div class="layoutArea"> <div class="column"> <div class="page"> <div class="layoutArea"> <div class="column"> <div class="page"> <div class="layoutArea"> <div class="column"> <p>Flagship Pioneering invents and builds platform companies, each with the potential for multiple products that transform human health, sustainability and beyond. Since its launch in 2000, Flagship has originated more than 100 companies. Many of these companies have addressed humanity’s most urgent challenges: vaccinating billions of people against COVID-19, curing intractable diseases, improving human health, preempting illness, and feeding the world by improving the resiliency and sustainability of agriculture.  </p> <p>Flagship has been recognized twice on FORTUNE’s “Change the World” list, an annual ranking of companies that have made a positive social and environmental impact through activities that are part of their core business strategies and has been twice named to Fast Company’s annual list of the World’s Most Innovative Companies. Learn more about Flagship at <a href="https://www.flagshippioneering.com">www.flagshippioneering.com</a>.</p> <p>At Flagship, we accept impossible missions to enable bigger leaps. Our <a href="https://www.flagshippioneering.com/values">core values</a> guide us through uncertainty and toward lasting impact.</p> <p><strong>We are an equal opportunity employer</strong>. All qualified applicants will be considered for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, protected veteran status, or any other characteristic protected by law.</p> <p>We recognize that great candidates often bring unique strengths <strong>without fulfilling every qualification</strong>. If you have some of the experience listed above but not all, please apply anyway. We are dedicated to building diverse and inclusive teams and look forward to learning more about your background<strong> and interest in Flagship.</strong></p> <p><strong><em>Recruitment & Staffing Agencies</em></strong><em>: Flagship Pioneering and its affiliated Flagship Lab companies (collectively, “FSP”) do not accept unsolicited resumes from any source other than candidates. The submission of unsolicited resumes by recruitment or staffing agencies to FSP or its employees is strictly prohibited unless contacted directly by Flagship Pioneering’s internal Talent Acquisition team. Any resume submitted by an agency in the absence of a signed agreement will automatically become the property of FSP, and FSP will not owe any referral or other fees with respect thereto.</em></p> <p> #LI-MB1</p> </div> </div> </div> </div> </div> </div> </div> </div> </div> <p id="pay-transparency" style="margin: 0 !important; padding: 0 !important; float: none !important; clear: both !important; display: block;">The salary range for this role is $146,000 - $209,000. Compensation for the role will depend on a number of factors, including a candidate’s qualifications, skills, competencies, and experience. Abiologics, Inc currently offers healthcare coverage, annual incentive program, retirement benefits and a broad range of other benefits. Compensation and benefits information is based on Abiologics, Inc's good faith estimate as of the date of publication and may be modified in the future.</p>