Medicinal Chemistry Senior Principal Research Scientist

Vertex Pharmaceuticals
Vertex Pharmaceuticals logo
Location
San Diego, CA
Job Type
Full-time
Posted
August 31, 2026
Views
3
Salary Range
$164k - $247k USD

Job Description

Vertex is seeking a Senior Principal Research Scientist, Medicinal Chemistry to provide scientific leadership in the design and optimization of small-molecule therapeutics across discovery programs. This role will play a critical part in advancing high-quality drug candidates from early discovery through candidate selection, while partnering across multidisciplinary teams to solve complex scientific challenges.

The ideal candidate is an accomplished medicinal chemist with deep expertise in small-molecule drug discovery, a strong record of scientific innovation, and demonstrated success in a fast-paced and matrixed research environment. This is an on-site role.

Key Responsibilities

  • Lead medicinal chemistry strategy for small-molecule discovery programs aligned with portfolio and project objectives.
  • Design, prioritize, and guide synthesis of novel compounds to optimize potency, selectivity, pharmacokinetics, and developability.
  • Interpret and integrate SAR, structural biology, DMPK, pharmacology, and safety data to drive compound design and progression.
  • Partner closely with biology, DMPK, toxicology, and pharmaceutical sciences to advance program goals.
  • Provide technical and strategic leadership to internal and external chemistry resources.
  • Provide scientific leadership, mentorship, and development support to chemistry team members.
  • Communicate program strategy, data, risks, and recommendations to senior leadership and governance teams.
  • Support intellectual property strategy in partnership with internal stakeholders.

Knowledge and Skills:

  • Specialized depth of knowledge and methods in own field/discipline
  • Ability to consistently advise/mentor others to execute technically challenging, complex experiments that directly impact projects and programs within discipline
  • Ability to consistently identify and leverage new, productive paths/approaches in experiments
  • Demonstrated initiative and ability to impact and advance projects through scientific creativity and insights
  • Assigned to the more challenging or higher-value project tasks/problems
  • Often will have demonstrated outstanding determination and/or persistence in supporting project(s)
  • Strong communication skills with the ability to effectively write advanced technical documents, and ability to persuade others presenting technical/scientific concepts to diverse audiences
  • Values team work and collaboration to solve problems and design strategies

Education and Experience:

  • Ph.D. in Chemistry or related scientific discipline with 6+ years of relevant postdoctoral industry experience; Master’s degree with 9+ years of relevant industry experience; or Bachelor’s degree with 11+ years of relevant industry experience.
  • Significant experience in medicinal chemistry and small-molecule drug discovery.
  • Demonstrated success advancing discovery programs through candidate selection.
  • Experience leading cross-functional and multidisciplinary teams including in matrixed settings.
  • Strong communication, strategic thinking, decision-making, prioritization, and problem-solving skills.

#LI-KM1

#LI-Onsite

Pay Range:

$164,400 - $246,600

Disclosure Statement:

The range provided is based on what we believe is a reasonable estimate for the base salary pay range for this job at the time of posting. This role is eligible for an annual bonus and annual equity awards. Some roles may also be eligible for overtime pay, in accordance with federal and state requirements. Actual base salary pay will be based on a number of factors, including skills, competencies, experience, and other job-related factors permitted by law.

At Vertex, our Total Rewards offerings also include inclusive market-leading benefits to meet our employees wherever they are in their career, financial, family and wellbeing journey while providing flexibility and resources to support their growth and aspirations. From medical, dental and vision benefits to generous paid time off (including a week-long company shutdown in the Summer and the Winter), educational assistance programs including student loan repayment, a generous commuting subsidy, matching charitable donations, 401(k) and so much more.

Vertex is seeking a Senior Principal Research Scientist, Medicinal Chemistry to provide scientific leadership in the design and optimization of small-molecule therapeutics across discovery programs. This role will play a critical part in advancing high-quality drug candidates from early discovery through candidate selection, while partnering across multidisciplinary teams to solve complex scientific challenges.

The ideal candidate is an accomplished medicinal chemist with deep expertise in small-molecule drug discovery, a strong record of scientific innovation, and demonstrated success in a fast-paced and matrixed research environment. This is an on-site role.

Key Responsibilities

  • Lead medicinal chemistry strategy for small-molecule discovery programs aligned with portfolio and project objectives.
  • Design, prioritize, and guide synthesis of novel compounds to optimize potency, selectivity, pharmacokinetics, and developability.
  • Interpret and integrate SAR, structural biology, DMPK, pharmacology, and safety data to drive compound design and progression.
  • Partner closely with biology, DMPK, toxicology, and pharmaceutical sciences to advance program goals.
  • Provide technical and strategic leadership to internal and external chemistry resources.
  • Provide scientific leadership, mentorship, and development support to chemistry team members.
  • Communicate program strategy, data, risks, and recommendations to senior leadership and governance teams.
  • Support intellectual property strategy in partnership with internal stakeholders.

Knowledge and Skills:

  • Specialized depth of knowledge and methods in own field/discipline
  • Ability to consistently advise/mentor others to execute technically challenging, complex experiments that directly impact projects and programs within discipline
  • Ability to consistently identify and leverage new, productive paths/approaches in experiments
  • Demonstrated initiative and ability to impact and advance projects through scientific creativity and insights
  • Assigned to the more challenging or higher-value project tasks/problems
  • Often will have demonstrated outstanding determination and/or persistence in supporting project(s)
  • Strong communication skills with the ability to effectively write advanced technical documents, and ability to persuade others presenting technical/scientific concepts to diverse audiences
  • Values team work and collaboration to solve problems and design strategies

Education and Experience:

  • Ph.D. in Chemistry or related scientific discipline with 6+ years of relevant postdoctoral industry experience; Master’s degree with 9+ years of relevant industry experience; or Bachelor’s degree with 11+ years of relevant industry experience.
  • Significant experience in medicinal chemistry and small-molecule drug discovery.
  • Demonstrated success advancing discovery programs through candidate selection.
  • Experience leading cross-functional and multidisciplinary teams including in matrixed settings.
  • Strong communication, strategic thinking, decision-making, prioritization, and problem-solving skills.

#LI-KM1

#LI-Onsite

Pay Range:

$164,400 - $246,600

Disclosure Statement:

The range provided is based on what we believe is a reasonable estimate for the base salary pay range for this job at the time of posting. This role is eligible for an annual bonus and annual equity awards. Some roles may also be eligible for overtime pay, in accordance with federal and state requirements. Actual base salary pay will be based on a number of factors, including skills, competencies, experience, and other job-related factors permitted by law.

At Vertex, our Total Rewards offerings also include inclusive market-leading benefits to meet our employees wherever they are in their career, financial, family and wellbeing journey while providing flexibility and resources to support their growth and aspirations. From medical, dental and vision benefits to generous paid time off (including a week-long company shutdown in the Summer and the Winter), educational assistance programs including student loan repayment, a generous commuting subsidy, matching charitable donations, 401(k) and so much more.

Flex Designation:

On-Site Designated

Flex Eligibility Status:

In thisOn-Sitedesignated role, you will workfive days per week on-sitewith ad hoc flexibility.

Note: The Flex status for this position is subject to Vertex’s Policy on Flex @ Vertex Program and may be changed at any time.

#LI-Onsite

Company Information

Vertex is a global biotechnology company that invests in scientific innovation.

Vertex is committed to equal employment opportunity and non-discrimination for all employees and qualified applicants without regard to a person's race, color, sex, gender identity or expression, age, religion, national origin, ancestry, ethnicity, disability, veteran status, genetic information, sexual orientation, marital status, or any characteristic protected under applicable law. Vertex is an E-Verify Employer in the United States. Vertex will make reasonable accommodations for qualified individuals with known disabilities, in accordance with applicable law.

Any applicant requiring an accommodation in connection with the hiring process and/or to perform the essential functions of the position for which the applicant has applied should make a request to the recruiter or hiring manager, or contact Talent Acquisition at ApplicationAssistance@vrtx.com

Researching Vertex Pharmaceuticals before you apply?

See 22 open roles · Verified H-1B salary data · Clinical-trial hiring momentum · Culture, benefits & locations.

View Vertex Pharmaceuticals profile

Frequently Asked Questions

Where is the job located, and is it remote/hybrid/on-site?
The position is located in San Diego, CA. It is an on-site role requiring you to work five days per week on-site with ad hoc flexibility.
What are the required qualifications and experience levels for this role?
You need a Ph.D. in Chemistry or a related discipline with 6+ years of postdoctoral industry experience, a Master's degree with 9+ years of industry experience, or a Bachelor's degree with 11+ years of industry experience. Significant experience in medicinal chemistry and small-molecule drug discovery is required.
What are the key responsibilities of this position?
You will lead medicinal chemistry strategy for small-molecule discovery programs, design and guide the synthesis of novel compounds, interpret scientific data, partner with multidisciplinary teams, provide technical leadership and mentorship to chemistry resources, and communicate program strategies to senior leadership.
What is the salary range for this role?
The estimated base salary range is $164,400 - $246,600. This role is also eligible for an annual bonus and annual equity awards.
What benefits does Vertex Pharmaceuticals offer?
Benefits include medical, dental, and vision coverage, generous paid time off (including summer and winter week-long company shutdowns), educational assistance with student loan repayment, a commuting subsidy, matching charitable donations, and a 401(k) plan.

Ready to Apply?

Apply for this Position

You'll be redirected to the company's application page

Share this job:

Explore Vertex Pharmaceuticals

Research the company before you apply.

  • 22 open roles
  • Verified H-1B salary data
  • Clinical-trial hiring momentum
  • Culture, benefits & locations
View company profile

Job Information

Source: workday
AI Relevance: 65/100 (Relevant)
Remote Type: onsite
Allowed Locations: San Diego, CA
Skills & Tags:
vertex pharmaceuticals pharma

Get Similar Jobs by Email

Weekly digest of Vertex Pharmaceuticals and similar companies. Free.

Related Jobs

Apply for this Position

Get weekly job alerts