Evidence map›Paper›PMID 33199876›Full record

ArticleNature biotechnology2021

Identification of highly selective covalent inhibitors by phage display.

Shiyu Chen, Scott Lovell, Sumin Lee, Matthias Fellner, Peter D Mace, Matthew Bogyo

Open access · greenAbstract read
In one paragraph

Article in Nature biotechnology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 76 papers.

0numbers the graph read from it
0cells of the map it votes in
76citing papers in PubMed
7.3field-weighted citation impact, top 2% of its field
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

76 citing papers in PubMed, 135 citations in OpenAlex.

  1. Article
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  6. Unique structural and ligand-binding properties of theProceedings of the National Academy of Sciences of the United States of America · 2026
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  7. Enhanced screening via a pure DNA-encoded peptide library enabled by an Fmoc modification.Proceedings of the National Academy of Sciences of the United States of America · 2026
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  8. Review
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  11. Pharmacophore-driven antibody discovery on the yeast surface.bioRxiv : the preprint server for biology · 2025
    Article
  12. Unique structural and ligand binding properties of thebioRxiv : the preprint server for biology · 2025
    Article
  13. Article
  14. Article
  15. Article
  16. Article
  17. Fishing for covalent peptides.Nature chemical biology · 2025
    Article
  18. Article
  19. Article
  20. Article

16 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

6 authors at 3 institutions in 2 countries.

Shiyu ChenDepartment of Pathology, Stanford University School of Medicine, Stanford, CA, USA.
Scott LovellDepartment of Pathology, Stanford University School of Medicine, Stanford, CA, USA.
Sumin LeeDepartment of Pathology, Stanford University School of Medicine, Stanford, CA, USA.
Matthias FellnerBiochemistry Department, School of Biomedical Sciences, University of Otago, Dunedin, New Zealand.ORCID http://orcid.org/0000-0003-3192-6984
Peter D MaceBiochemistry Department, School of Biomedical Sciences, University of Otago, Dunedin, New Zealand.
Matthew BogyoDepartment of Pathology, Stanford University School of Medicine, Stanford, CA, USA. mbogyo@stanford.edu.ORCID http://orcid.org/0000-0003-3753-4412
Stanford University · USUniversity of Otago · NZStanford Medicine · US

Funding

Dual orthogonal fluorescent protease sensors for image guided surgeryR01EB028628 · NIBIB · STANFORD UNIVERSITY · PI BOGYO, MATTHEW · 2019 to 2023
$1.9M
Generation of highly selective activity based probes using chemically modified phageR01EB026285 · NIBIB · STANFORD UNIVERSITY · PI BOGYO, MATTHEW · 2018 to 2021
$1.9M
NIBIB NIH HHS R01 EB026285NIBIB NIH HHS R01 EB028628
6 · The paper itself

Abstract

Molecules that covalently bind macromolecular targets have found widespread applications as activity-based probes and as irreversibly binding drugs. However, the general reactivity of the electrophiles needed for covalent bond formation makes control of selectivity difficult. There is currently no rapid, unbiased screening method to identify new classes of covalent inhibitors from highly diverse pools of candidate molecules. Here we describe a phage display method to directly screen for ligands that bind to protein targets through covalent bond formation. This approach makes use of a reactive linker to form cyclic peptides on the phage surface while simultaneously introducing an electrophilic 'warhead' to covalently react with a nucleophile on the target. Using this approach, we identified cyclic peptides that irreversibly inhibited a cysteine protease and a serine hydrolase with nanomolar potency and exceptional specificity. This approach should enable rapid, unbiased screening to identify new classes of highly selective covalent inhibitors for diverse molecular targets.

Indexed as

Cell Surface Display TechniquesCysteine Proteinase InhibitorsHydrolasesModels, MolecularMolecular Dynamics SimulationMolecular StructurePeptides, CyclicProteinsCysteine Proteinase InhibitorsHydrolasesPeptides, CyclicProteins

Identifiers

PMID33199876
PMCPMC8043995
OpenAlexW3104492196

What OpenQuestion holds

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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.