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Contract Protein Engineering Scientist Jobs (NOW HIRING)

Director, Protein Engineering

Redmond, WA · On-site

$180K - $240K/yr

This is a hands-on scientific leadership role that combines team management, platform ownership ... Stay current on the protein engineering, display technology, and lab automation landscape; bring ...

Director, Protein Engineering

Redmond, WA · On-site

$180K - $240K/yr

This is a hands-on scientific leadership role that combines team management, platform ownership ... Stay current on the protein engineering, display technology, and lab automation landscape; bring ...

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Contract Protein Engineering Scientist information

See salary details

$40.5K

$98.8K

$156.5K

How much do contract protein engineering scientist jobs pay per year?

As of Jul 31, 2026, the average yearly pay for contract protein engineering scientist in the United States is $98,759.00, according to ZipRecruiter salary data. Most workers in this role earn between $78,000.00 and $116,000.00 per year, depending on experience, location, and employer.

What are Contract Protein Engineering Scientists?

Contract Protein Engineering Scientists are professionals who are hired on a temporary or project basis to design, modify, and optimize proteins for specific applications, such as pharmaceuticals, biotechnology, or research. They use techniques like directed evolution, rational design, and computational modeling to alter protein structures and functions to meet client needs. These scientists often work for contract research organizations (CROs), biotech companies, or as independent consultants, providing specialized expertise without long-term employment commitments.

What are some common challenges faced by Contract Protein Engineering Scientists when working with external clients?

Contract Protein Engineering Scientists often navigate complex project requirements and tight timelines set by external clients. Communication is key, as clients may have evolving goals or provide incomplete experimental data, requiring adaptability and frequent progress updates. Additionally, ensuring alignment on technical expectations and deliverables while maintaining scientific rigor can be challenging in a fast-paced, contract-based environment. Building strong collaborative relationships with both internal team members and client representatives helps overcome these hurdles and deliver successful project outcomes.

What are the key skills and qualifications needed to thrive as a Contract Protein Engineering Scientist, and why are they important?

To thrive as a Contract Protein Engineering Scientist, you need a strong background in molecular biology, biochemistry, and protein design, typically with a PhD or MSc in a related field. Experience with techniques such as site-directed mutagenesis, protein expression and purification, and familiarity with tools like PyMOL, Rosetta, and relevant bioinformatics databases is essential. Strong problem-solving abilities, attention to detail, and effective communication help you collaborate with cross-functional teams and manage project timelines. These skills and qualities are crucial for developing innovative protein solutions and ensuring project success in a fast-paced, contract-based environment.
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What cities are hiring for Contract Protein Engineering Scientist jobs? Cities with the most Contract Protein Engineering Scientist job openings:
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Infographic showing various Contract Protein Engineering Scientist job openings in the United States as of July 2026, with employment types broken down into 57% Full Time, 22% Part Time, 1% Temporary, and 20% Contract. Highlights an 79% Physical, 2% Hybrid, and 19% Remote job distribution, with an average salary of $98,759 per year, or $47.5 per hour.

Scientist - Protein Production

Helix Biostructures

Indianapolis, IN • On-site

Full-time

Medical, Dental, Vision, Retirement

Posted 24 days ago


Job description

Salary:

Scientist Protein Production

Helix BioStructures, LLC (HBS) is a contract research organization (CRO) based in Indianapolis, Indiana, providing early drug discovery services to the biopharmaceutical industry. HBS maintains a full suite of services that encompass chemical & structural analysis, protein production, computational modeling, and design. HBSs core and most popular services are structural biology imaging techniques: X-ray Crystallography and Cryo-EM. HBS was founded in 2018 and has grown considerably. We are looking to add a Scientist focused on protein production to join our Indianapolis-based team.


Main Responsibilities


This scientist will support our protein production pipeline by expressing and purifying recombinant proteins in bacterial, insect, and mammalian systems; performing biophysical characterization to assess sample quality and stability; developing and optimizing expression and purification protocols; interfacing with our clients; and writing technical project reports. The scientist will also contribute to improving expression and purification methods to accelerate research processes.

Highly desirable hands-on experiences include:

(a) Experience in recombinant protein expression and purification across bacterial, insect, and mammalian cell lines.

(b) Use of biophysical and analytical techniques (e.g., SDS-PAGE, SEC, Western Blot, TSA, DLS, Mass Spectrometry, and others) to assess protein quality, purity, and stability.

This scientist will employ a range of experimental methods (biochemical, biophysical, and/or computational) to support our clients structure-based drug discovery, antibody discovery, and/or protein engineering. Accordingly, proficiency in recombinant protein expression and purification and a passion for generating high-quality, well-characterized protein reagents are essential. Any structural biology experience (X-ray crystallography or Cryo-EM) is a plus, but is not required for this role. The successful candidate will be a strong technical contributor who can execute reliably at the bench and collaborate with colleagues on multiple projects in parallel. This role is open to candidates ranging from entry-level to experienced scientists; the level of hire, scope, and degree of independence will be determined by the candidates experience and qualifications, with the opportunity to help drive discovery projects from inception through early development.

Additional Responsibilities

  • Express and purify proteins to target quality and yield within industrial timeframes.
  • Document experimental data and communicate research priorities, progress, and results with clients/project teams.
  • Provide technical and scientific input to project teams, with the scope of guidance to other members of the Protein Sciences group, scaling with seniority and experience.
  • The candidate will be responsible for timely updates on project statuses, reporting to their supervisor informally and to Helixs customers by formal report writing and oral presentations.

Required Qualifications

This position is open to candidates ranging from entry-level to experienced scientists. The qualifications below represent the minimum requirements for the role; the final level of hire will be determined based on the candidates experience and qualifications.


  • D. in biochemistry, biophysics, molecular biology, protein engineering, or a related field; OR a Masters degree with 25 years of relevant industrial experience; OR a Bachelors degree with 510 years of relevant industrial experience.
  • Demonstrated competency in recombinant protein expression and purification using bacterial, insect, and mammalian cell lines; hands-on experience across all three systems is strongly preferred.
  • Ability to generate and characterize milligram to gram quantities of high-quality protein reagents for downstream studies.
  • Experience with standard analytical and biophysical techniques (e.g., SDS-PAGE, SEC, Western Blot, TSA, DLS, Mass Spectrometry, and others) for assessing protein quality, purity, and stability during purification.
  • Strong written and oral communication skills.


Additional qualifications


  • Hands-on experience in engineering protein constructs and optimizing the production of protein targets for structural and functional studies.
  • Experience in structural biology is a plus but not required, including protein X-ray crystallography (sample assessment, crystallization, optimization, data collection, and structure determination/refinement) and familiarity with software such as Phenix, CCP4, Coot, and PyMOL.
  • Experience with protein engineering and/or design approaches.
  • Analysis, design, and/or computational approaches to investigate ligand-protein complexes.
  • Experience with Cryo-EM is a plus, especially grid vitrification and screening.
  • Excellent communication, interpersonal, and organizational skills.
  • Willingness to tackle challenging technical problems.

Location



This position is based in Indianapolis, Indiana, and does NOT offer a hybrid option. Interaction with external service vendors is also expected. Candidates must be authorized to work in the United States; Helix BioStructures does NOT provide visa sponsorship for this position.


Physical Requirements

Able to lift 30 lb objects with dimensions 30 inches in height and 18 inches in width.

Able to visualize microscopic objects under microscopes.

Non-standard work schedule, travel, and lab safety


Able to adhere to safe work practices and perform lab work with appropriate personal protective equipment, such as but not limited to safety goggles, facial mask, gloves, lab coat/ protective gowning, and closed-toe shoes. Able to work at flexible hours occasionally when performing time-sensitive experiments.

Other job details

  • Eligible for Relocation Package
  • Competitive Salary + annual bonus
  • Retirement (matching 401K)
  • Health/Dental/Vision Insurance
  • Company Apple Computer

Helix BioStructures, LLC is an equal opportunity employer, and we embrace the increasingly diverse world around us. Helix BioStructures, LLC prohibits unlawful discrimination based on race, color, religion, gender, sexual orientation, gender identity or expression, national origin or ancestry, age, disability, marital status, and veteran status.