Evidence map›Paper›PMID 40705892›Full record

ArticleScience (New York, N.Y.)2025

Design of high-specificity binders for peptide-MHC-I complexes.

Bingxu Liu, Nathan F Greenwood, Julia E Bonzanini, Amir Motmaen, Jeremy Meyerberg, Tao Dao, Xinyu Xiang, Russell Ault, Jazmin Sharp, Chunyu Wang and 7 more

Abstract read
In one paragraph

Article in Science (New York, N.Y.), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.

0numbers the graph read from it
0cells of the map it votes in
44citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

44 citing papers in PubMed.

  1. Review
  2. Article
  3. Review
  4. Discovery of TCR-like antibodies to the KRAS G12D neoantigen via in silico-in vitro workflow.Molecular therapy : the journal of the American Society of Gene Therapy · 2026
    Article
  5. Review
  6. Article
  7. Article
  8. Review
  9. Article
  10. Article
  11. Review
  12. Review
  13. Article
  14. Article
  15. Article
  16. Article
  17. Review
  18. Protein foundation models: a comprehensive survey.Science China. Life sciences · 2026
    Review
  19. Review
  20. Design principles of the cytotoxic CD8Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

17 authors.

Bingxu Liu *Department of Biochemistry, University of Washington, Seattle, WA, USA.ORCID 0000-0002-3661-3410
Nathan F Greenwood *Department of Biochemistry, University of Washington, Seattle, WA, USA.ORCID 0009-0005-2167-3647
Julia E Bonzanini *Department of Biochemistry, University of Washington, Seattle, WA, USA.ORCID 0009-0004-0860-9678
Amir MotmaenDepartment of Biochemistry, University of Washington, Seattle, WA, USA.
Jeremy MeyerbergMolecular Pharmacology Program, Memorial Sloan Kettering Cancer Center, New York, NY, USA.ORCID 0000-0001-7029-847X
Tao DaoMolecular Pharmacology Program, Memorial Sloan Kettering Cancer Center, New York, NY, USA.ORCID 0000-0001-9937-6283
Xinyu XiangDepartments of Molecular and Cellular Physiology and Structural Biology, Stanford University School of Medicine, Stanford, CA, USA.ORCID 0000-0002-8358-2960
Russell AultDepartment of Pediatrics, Children's Hospital of Philadelphia, Philadelphia, PA, USA.ORCID 0000-0002-5430-5366
Jazmin SharpDepartment of Biochemistry, University of Washington, Seattle, WA, USA.ORCID 0009-0002-6221-8892
Chunyu WangDepartments of Molecular and Cellular Physiology and Structural Biology, Stanford University School of Medicine, Stanford, CA, USA.ORCID 0009-0009-6392-7608
Gian Marco VisaniPaul G. Allen School of Computer Science and Engineering, University of Washington, Seattle, WA, USA.
Dionne K VafeadosDepartment of Biochemistry, University of Washington, Seattle, WA, USA.ORCID 0000-0002-2560-8907
Nicole RoullierDepartment of Biochemistry, University of Washington, Seattle, WA, USA.ORCID 0009-0004-8430-9538
Armita NourmohammadPaul G. Allen School of Computer Science and Engineering, University of Washington, Seattle, WA, USA.ORCID 0000-0002-6245-3553
David A ScheinbergMolecular Pharmacology Program, Memorial Sloan Kettering Cancer Center, New York, NY, USA.ORCID 0000-0002-4160-923X
K Christopher GarciaDepartments of Molecular and Cellular Physiology and Structural Biology, Stanford University School of Medicine, Stanford, CA, USA.ORCID 0000-0001-9273-0278
David BakerDepartment of Biochemistry, University of Washington, Seattle, WA, USA.ORCID 0000-0001-7896-6217

Funding

X-RAY CRYSTALLOGRAPHYP30CA008748 · NCI · SLOAN-KETTERING INSTITUTE FOR CANCER RES · PI SELWYN M VICKERS · 1985 to 2026
$347.4M
T LYMPHOCYTE SUBSET FUNCTION POST-TRANSPLANTATIONP01CA023766 · NCI · SLOAN-KETTERING INSTITUTE FOR CANCER RES · PI PERALES, MIGUEL-ANGEL · 1985 to 2023
$59.0M
Understanding and Mimicking TCR Recognition with Therapeutic Monoclonal Antibodies.R35CA241894 · NCI · SLOAN-KETTERING INST CAN RESEARCH · PI DAVID A SCHEINBERG · 2020 to 2026
$7.2M
Structural correlates of T cell receptor signalingR01AI103867 · NIAID · STANFORD UNIVERSITY · PI Kenan Christopher GARCIA · 2014 to 2026
$5.3M
Learning a molecular shape space for the adaptive immune systemR35GM142795 · NIGMS · UNIVERSITY OF WASHINGTON · PI NOURMOHAMMAD, ARMITA · 2021 to 2025
$1.8M
MATCHMAKERSOT2CA297288 · NCI · UNIVERSITY OF WASHINGTON · PI DAVID BAKER · 2024 to 2026
$1.2M
MATCHMAKERS: SOLVING TCR RECOGNITION AND DESIGN VIA INTEGRATED HIGH-THROUGHPUT SCREENING, STRUCTURAL, FUNCTIONAL, AND COMPUTATIONAL APPROACHESOT2CA297242 · NCI · STANFORD UNIVERSITY · PI Kenan Christopher GARCIA · 2024 to 2026
$1.1M
Next generation platforms for interrogating TCR specificityR33CA302206 · NCI · STANFORD UNIVERSITY · PI Kenan Christopher GARCIA · 2025 to 2026
$737k
Developing therapeutic TCR mimic monoclonal antibodies for cancerR50CA265328 · NCI · SLOAN-KETTERING INST CAN RESEARCH · PI Tao Dao · 2022 to 2026
$676k
Howard Hughes Medical InstituteNCI NIH HHS OT2 CA297242NCI NIH HHS OT2 CA297288NCI NIH HHS P01 CA023766NCI NIH HHS P30 CA008748NCI NIH HHS R33 CA302206NCI NIH HHS R35 CA241894NCI NIH HHS R50 CA265328NIAID NIH HHS R01 AI103867NIGMS NIH HHS R35 GM142795
6 · The paper itself

Abstract

Class I major histocompatibility complex (MHC-I) molecules present peptides derived from intracellular antigens on the cell surface for immune surveillance. Proteins that recognize peptide-MHC-I (pMHCI) complexes with specificity for diseased cells could have considerable therapeutic utility. Specificity requires recognition of outward-facing amino acid residues within the disease-associated peptide as well as avoidance of extensive contacts with ubiquitously expressed MHC. We used RFdiffusion to design pMHCI-binding proteins that make extensive contacts with the peptide and identified specific binders for 11 target pMHCs starting from either experimental or predicted pMHCI structures. Upon incorporation into chimeric antigen receptors, designs for eight targets conferred peptide-specific T cell activation. Our approach should have broad utility for both protein- and cell-based pMHCI targeting.

Indexed as

Histocompatibility Antigens Class IPeptidesHumansLymphocyte ActivationProtein BindingProtein EngineeringReceptors, Chimeric AntigenT-LymphocytesHistocompatibility Antigens Class IPeptidesReceptors, Chimeric Antigen

Identifiers

PMID40705892
PMCPMC13077772

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.