Abiologics
Overview
Join to apply for the
(Senior) Scientist, Protein Design
role at
Abiologics .
Abiologics is a Flagship Pioneering company developing Synteins — a transformative class of fully synthetic proteins composed entirely of artificial building blocks such as D-amino acids and non-canonical residues. SynteinsTM 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. Powered by a proprietary AI-enabled discovery platform, Abiologics integrates generative design, automated synthesis, and rapid experimental screening to enable iterative optimization at scale.
Position Summary We are seeking a
Protein Design Scientist
to drive the 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. Ideal candidates have deep experience in
de novo protein design ,
miniproteins , and
binder engineering
and are eager to push the boundaries of non-natural protein design in a fast-moving, data-rich environment.
Key Responsibilities
Design and execute SynteinsTM engineering campaigns to generate drug candidates
Create computational design strategies to deliver drug candidates drawing from array of ML tools and Rosetta scripts
Collaborate with computation, chemistry, and experimental biology teams to optimize designs for function, solubility, and stability
Integrate structural and biophysical data (e.g., BLI binding, CD, HDX-MS, CryoEM) into iterative optimization cycles
Qualifications Required
PhD in structural biology, biophysics, protein design, or related field
2+ years of hands-on experience in structure-guided protein design
Demonstrated proficiency with modern structure prediction and design tools such as RFdiffusion, proteinMPNN, AF2, ESMFold, Boltz, Rosetta or equivalent SOTA tools for in-silico protein engineering
Strong understanding of the biophysics of protein folding and interface energetics
Demonstrated ability to progress designs from concept to experimental testing
Excellent communication skills
Preferred
Experience designing minibinders or proteins
Familiarity with non-canonical amino acid design
Familiarity with molecular dynamics tools
Exposure to high-throughput or automated protein engineering environments
Prior work on platform-based or early-stage biotech teams
Why Join Abiologics
Help invent a new class of programmable synthetic proteins
Be part of a high-velocity discovery platform with real-time synthesis and screening
Collaborate with a deeply interdisciplinary, mission-driven team
Redefine the limits of what proteins can do
At Flagship, we recognize there is no perfect candidate. If you have some of the experience listed above but not all, please apply anyway. Experience comes in many forms, skills are transferable, and passion goes a long way. We are dedicated to building diverse and inclusive teams and look forward to learning more about your unique background.
About Flagship Pioneering Flagship Pioneering is a bioplatform innovation company that invents and builds platform companies that change the world. We bring together the greatest scientific minds with entrepreneurial company builders and assemble the capital to allow them to take courageous leaps. Those big leaps in human health and sustainability exponentially accelerate scientific progress in areas ranging from cancer detection and treatment to nature-positive agriculture. What sets Flagship apart is our ability to advance biotechnology by uniting life science innovation, company creation, and capital investment under one roof in a way that is largely without precedent. Our scientific founders, entrepreneurial leaders, and professional capital managers are each aligned around an institutionalized process that enables us to innovate and transform for the benefit of people and planet.
Flagship has been recognized on Fortune’s Change the World list and Fast Company’s World’s Most Innovative Companies list. Flagship Pioneering and our ecosystem companies are
committed to equal employment opportunity
regardless of race, color, ancestry, religion, sex, national origin, sexual orientation, age, citizenship, marital status, disability, gender identity or Veteran status.
EEO Statement Recruitment & Staffing Agencies : 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.
Seniority level: Mid-Senior level
Employment type: Full-time
Job function: Research, Analyst, and Information Technology
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(Senior) Scientist, Protein Design
role at
Abiologics .
Abiologics is a Flagship Pioneering company developing Synteins — a transformative class of fully synthetic proteins composed entirely of artificial building blocks such as D-amino acids and non-canonical residues. SynteinsTM 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. Powered by a proprietary AI-enabled discovery platform, Abiologics integrates generative design, automated synthesis, and rapid experimental screening to enable iterative optimization at scale.
Position Summary We are seeking a
Protein Design Scientist
to drive the 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. Ideal candidates have deep experience in
de novo protein design ,
miniproteins , and
binder engineering
and are eager to push the boundaries of non-natural protein design in a fast-moving, data-rich environment.
Key Responsibilities
Design and execute SynteinsTM engineering campaigns to generate drug candidates
Create computational design strategies to deliver drug candidates drawing from array of ML tools and Rosetta scripts
Collaborate with computation, chemistry, and experimental biology teams to optimize designs for function, solubility, and stability
Integrate structural and biophysical data (e.g., BLI binding, CD, HDX-MS, CryoEM) into iterative optimization cycles
Qualifications Required
PhD in structural biology, biophysics, protein design, or related field
2+ years of hands-on experience in structure-guided protein design
Demonstrated proficiency with modern structure prediction and design tools such as RFdiffusion, proteinMPNN, AF2, ESMFold, Boltz, Rosetta or equivalent SOTA tools for in-silico protein engineering
Strong understanding of the biophysics of protein folding and interface energetics
Demonstrated ability to progress designs from concept to experimental testing
Excellent communication skills
Preferred
Experience designing minibinders or proteins
Familiarity with non-canonical amino acid design
Familiarity with molecular dynamics tools
Exposure to high-throughput or automated protein engineering environments
Prior work on platform-based or early-stage biotech teams
Why Join Abiologics
Help invent a new class of programmable synthetic proteins
Be part of a high-velocity discovery platform with real-time synthesis and screening
Collaborate with a deeply interdisciplinary, mission-driven team
Redefine the limits of what proteins can do
At Flagship, we recognize there is no perfect candidate. If you have some of the experience listed above but not all, please apply anyway. Experience comes in many forms, skills are transferable, and passion goes a long way. We are dedicated to building diverse and inclusive teams and look forward to learning more about your unique background.
About Flagship Pioneering Flagship Pioneering is a bioplatform innovation company that invents and builds platform companies that change the world. We bring together the greatest scientific minds with entrepreneurial company builders and assemble the capital to allow them to take courageous leaps. Those big leaps in human health and sustainability exponentially accelerate scientific progress in areas ranging from cancer detection and treatment to nature-positive agriculture. What sets Flagship apart is our ability to advance biotechnology by uniting life science innovation, company creation, and capital investment under one roof in a way that is largely without precedent. Our scientific founders, entrepreneurial leaders, and professional capital managers are each aligned around an institutionalized process that enables us to innovate and transform for the benefit of people and planet.
Flagship has been recognized on Fortune’s Change the World list and Fast Company’s World’s Most Innovative Companies list. Flagship Pioneering and our ecosystem companies are
committed to equal employment opportunity
regardless of race, color, ancestry, religion, sex, national origin, sexual orientation, age, citizenship, marital status, disability, gender identity or Veteran status.
EEO Statement Recruitment & Staffing Agencies : 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.
Seniority level: Mid-Senior level
Employment type: Full-time
Job function: Research, Analyst, and Information Technology
#J-18808-Ljbffr