Bioinformatics Intern - Protein Design

Role Purpose:

• Apply computational protein design methods to generate novel protein candidates and minibinders to selected targets.
• Optimize workflows that integrate protein design, structure prediction, and ranking approaches to identify promising candidates.
• Evaluate designed protein variants using sequence- and structure-based analyses.

Accountabilities:

• Leverage open-source protein design and structure prediction workflows using tools such as ProteinMPNN, BoltzGen, and Boltz-2.
• Design, rank, and filter protein candidates based on predicted structure, interface quality, and computational metrics.
• Perform structural analysis and annotation of designed proteins and protein-protein interfaces.
• Test and run computational protein design tools in Linux, HPC, or cloud-based environments such as AWS.
• Develop Python/Bash scripts for data processing, workflow automation, and visualization.
• Document workflows, create user guides and READMEs, and present findings to cross-functional teams.
• Collaborate with and take guidance from other scientists to refine design strategy based on biological insights.
• Summarize design results in clear reports, visualizations, and recommendations for follow-up testing.

Required Qualifications:

Education:

• Current MS or PhD student in Bioinformatics, Computational Biology, Structural Biology, Biochemistry, Computer Science, or related field.

Technical:

• Proficiency in Python and basic Bash scripting.
• Basic understanding of protein structure concepts, including protein domains, structural alignment, and protein-protein interfaces.
• Familiarity with protein structure prediction methods such as Boltz-2 or AlphaFold.
• Familiarity with generative protein design or sequence design tools such as RFdiffusion or ProteinMPNN.
• Familiarity with protein structure visualization tools (PyMOL).
• Experience with Linux/Unix command-line environments.

Analytical:

• Ability to work with large datasets and implement reproducible computational workflows.
• Strong problem-solving skills and attention to detail.
• Effective written and verbal communication skills.

Desired Qualifications:

• Experience evaluating protein-protein interfaces using structural or energetic metrics (e.g. PyRosetta).
• Knowledge of protein databases such as PDB, UniProt, AlphaFoldDB, or ESM Metagenomic Atlas.
• Experience with HPC or cloud computing environments, such as AWS.
• Experience with workflow automation, containerized tools, or reproducible software environments.
• Self-motivated with ability to work independently and collaboratively.
• Enthusiasm for learning new computational methods and tools.
• Experience presenting technical work to diverse audiences.

Salary for this position ranges between $20 - $45 hourly.

What We Offer:

• A culture that celebrates belonging and collaboration, promotes professional development and strives for a work-life balance that supports the team members.
• ⁠Competitive wages
• Ongoing career development resources
• The opportunity to work on meaningful, innovative projects that solve problems

Syngenta is committed to creating a culture that celebrates belonging and collaboration, promotes professional development, and strives for a work-life balance that supports the team members

Syngenta has been ranked as a top employer by Science Journal. Learn more about our team and our mission here: https://www.youtube.com/watch?v=OVCN_51GbNI

Syngenta is an Equal Opportunity Employer and does not discriminate in recruitment, hiring, training, promotion or any other employment practices for reasons of race, color, religion, gender, national origin, age, sexual orientation, marital or veteran status, disability, or any other legally protected status.

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