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Medicinal Chemistry Senior Principal Research Scientist

Vertex Pharmaceuticals

Company websitevrtx.com (Vertex Pharmaceuticals, opens in new tab)

Base salary $164,400  to $246,600

Employer-published annual base salary, USD. Advertised base range in San Diego, CA

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  • LocationSan Diego, CA
  • WorkplaceWorkplace not stated
  • Status at last checkSource accepting applications when checked
  • Last checked (1 h ago) · observed since

About this job

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. Leading from the lab, 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 with approximately 75% of time being spent in the lab.


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:

  • Medicinal chemistry
  • Organic synthesis
  • Small-molecule drug discovery
  • Lead optimization
  • SAR analysis
  • Compound design
  • Candidate selection
  • DMPK/ADME collaboration
  • Drug property optimization
  • Patent support

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


At Vertex, we embrace continuous learning and encourage employees to stay informed on advances in AI, technology, automation, and industry trends. We seek talent who bring an external perspective, demonstrate curiosity and sound judgment, and thoughtfully adopt new capabilities that improve decision-making, drive innovation, increase efficiency, and help deliver better outcomes for patients.

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 this On-Site designated role, you will work five days per week on-site with 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 [email protected]

Source: Vertex Pharmaceuticals on Workday · View original posting (opens in new tab)

Pay in context

This role's base floor ($164,400) is above 29% of the 1,729 Data & ML roles in California listed on this site. Their median floor is $184,000; the middle half runs from $154,000 to $224,000.

Only jobs on this site count, and each one publishes a base salary of $100,000 or more, so this compares six-figure jobs with each other, not with the whole market. Computed Nov 8, 2026.

This range next to 6 other live Vertex Pharmaceuticals roles with the nearest advertised base floor
Chart as a table
This range next to 6 other live Vertex Pharmaceuticals roles with the nearest advertised base floor
RolePublished base
Medicinal Chemistry Senior Principal Research Scientist (this listing)$164,400 - $246,600
Business Engagement & Technology, Associate Director - Clinical & Early Development$164,400 - $246,600
Associate Director, Automation Engineering$166K - $249K
Associate Director, Regulatory CMC, Biologics$166,400 - $249,600
Director, Strategic Accounts - West Region (TX, CA, CO , AZ)$166,400 - $249,600
Trade Account Associate Director$166,400 - $249,600
Principal Full Stack AI Engineer$166,640 - $250,000

Same $100K to $400K scale as every card. All Vertex Pharmaceuticals roles · How to read the bar

Observed changes

  1. First observed on the employer's board
  2. Began meeting the published-salary criteria
Observed since
Employer-stated posting date
2026-10-16
Where this pay comes from

Location as the employer wrote it: San Diego, CA

$164,400 - $246,600

Method
Employer text, read with fixed rules and re-verified
Checked
Rule set
us-base-v2

The pay passage appears in the employer's own job text. Fixed, deterministic rules located it, and the passage below was checked against the stored copy of the posting.

What we verified

  • The pay figures come from the employer's own listing, quoted exactly above.
  • The pay is an annual base salary in US dollars with a minimum of at least $100,000.
  • The role was publicly listed on the employer's job board when last checked.

We do not verify what the employer will actually offer, whether the employer is still recruiting for the role, or anything beyond what the employer published. Full methodology.

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