
Deep Apple Therapeutics discovers novel small-molecule drug candidates for validated targets in inflammatory, metabolic, and endocrine diseases. The company combines ensemble cryo-EM to map receptor conformations with deep learning and large-scale molecular docking of multi‑billion compound libraries generated by its proprietary Orchard.ai algorithm. Its platform is a structure-based, machine-learning driven drug discovery engine built on computational modeling, protein structure determination, and analysis of protein dynamics to prioritize candidates rapidly. Deep Apple operates as a biotech drug discovery company targeting partnerships and preclinical advancement of novel small molecules.

Deep Apple Therapeutics discovers novel small-molecule drug candidates for validated targets in inflammatory, metabolic, and endocrine diseases. The company combines ensemble cryo-EM to map receptor conformations with deep learning and large-scale molecular docking of multi‑billion compound libraries generated by its proprietary Orchard.ai algorithm. Its platform is a structure-based, machine-learning driven drug discovery engine built on computational modeling, protein structure determination, and analysis of protein dynamics to prioritize candidates rapidly. Deep Apple operates as a biotech drug discovery company targeting partnerships and preclinical advancement of novel small molecules.
Founded: 2022
HQ / Base: San Francisco
Focus: Small-molecule drug discovery (GPCRs, membrane proteins); inflammatory, metabolic, endocrine diseases
Platform: Ensemble cryo-EM, deep learning, molecular dynamics, ultra-large virtual-library docking (Orchard.ai)
Series A: $52M (Dec 14, 2023) led by Apple Tree Partners
Drug discovery for inflammatory, metabolic, and endocrine diseases, with emphasis on GPCR and membrane-protein targets.
2022
Biotechnology Research
$52,000,000
Company created and incubated by Apple Tree Partners; Series A announced upon emergence from stealth.
“Led and incubated by Apple Tree Partners”
| Company |
|---|
About Us:
Deep Apple Therapeutics is a Bay Area biotechnology company with a focus on combining capabilities in molecular docking and structural biology to create a nucleus for accelerated drug discovery through advanced computer aided drug design technologies. Deep Apple Therapeutics is applying a state-of-the-art technology research platform based on advanced computational modeling and large-scale compound docking (LSD), cryo-EM based structural biology, and deep learning to drug discovery.
Role Description:
Our innovation and value-driven organization is seeking to hire an experienced Scientist to join our rapidly growing team. This position requires broad technical experience in cheminformatics, and a strong emphasis on an industrial mindset underpinned by critical thinking, multitasking, and the ability to propose new approaches and ideas. This position will focus on collaborating with medicinal chemists, project leads, deep learning scientists and computational chemists as well as wet-lab scientist to develop software and systems to enable cutting-edge research in small molecule drug discovery. Projects will span diverse technologies and will include understanding, maintaining, and extending existing critical applications as well as developing novel tools. The common thread is creating innovative software solutions supporting small molecule drug discovery groups
Key Responsibilities
Required Qualifications and Skills