Evidence map›Paper›PMID 38040731›Full record

ArticleNature communications2023

A simple method for developing lysine targeted covalent protein reagents.

Ronen Gabizon, Barr Tivon, Rambabu N Reddi, Maxime C M van den Oetelaar, Hadar Amartely, Peter J Cossar, Christian Ottmann, Nir London

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing papers in PubMed
4.3field-weighted citation impact, top 5% 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

10 citing papers in PubMed, 28 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Computational Design of Lysine Targeting Covalent Binders Using Rosetta.Journal of chemical information and modeling · 2025
    Article
  6. Covalent Proximity Inducers.Chemical reviews · 2025
    Review
  7. Article
  8. Article
  9. Article
  10. Tying the knot with lysine.Nature reviews. Chemistry · 2024
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors at 3 institutions in 2 countries.

Ronen Gabizon *Department of Chemical and Structural Biology, The Weizmann Institute of Science, Rehovot, 7610001, Israel.
Barr Tivon *Department of Chemical and Structural Biology, The Weizmann Institute of Science, Rehovot, 7610001, Israel.
Rambabu N ReddiDepartment of Chemical and Structural Biology, The Weizmann Institute of Science, Rehovot, 7610001, Israel.
Maxime C M van den OetelaarLaboratory of Chemical Biology, Department of Biomedical Engineering, Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600MB, Eindhoven, The Netherlands.
Hadar AmartelyWolfson Centre for Applied Structural Biology, The Alexander Silberman Institute of Life Sciences, The Hebrew University of Jerusalem, Jerusalem, 9190401, Israel.
Peter J CossarLaboratory of Chemical Biology, Department of Biomedical Engineering, Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600MB, Eindhoven, The Netherlands.ORCID 0000-0002-8260-5710
Christian OttmannLaboratory of Chemical Biology, Department of Biomedical Engineering, Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600MB, Eindhoven, The Netherlands.ORCID 0000-0001-7315-0315
Nir LondonDepartment of Chemical and Structural Biology, The Weizmann Institute of Science, Rehovot, 7610001, Israel. nir.london@weizmann.ac.il.ORCID 0000-0003-2687-0699
Weizmann Institute of Science · ILEindhoven University of Technology · NLHebrew University of Jerusalem · IL

Funding

Israel Science Foundation (ISF) 2462/19
6 · The paper itself

Abstract

Peptide-based covalent probes can target shallow protein surfaces not typically addressable using small molecules, yet there is a need for versatile approaches to convert native peptide sequences into covalent binders that can target a broad range of residues. Here we report protein-based thio-methacrylate esters-electrophiles that can be installed easily on unprotected peptides and proteins via cysteine side chains, and react efficiently and selectively with cysteine and lysine side chains on the target. Methacrylate phosphopeptides derived from 14-3-3-binding proteins irreversibly label 14-3-3σ via either lysine or cysteine residues, depending on the position of the electrophile. Methacrylate peptides targeting a conserved lysine residue exhibit pan-isoform binding of 14-3-3 proteins both in lysates and in extracellular media. Finally, we apply this approach to develop protein-based covalent binders. A methacrylate-modified variant of the colicin E9 immunity protein irreversibly binds to the E9 DNAse, resulting in significantly higher thermal stability relative to the non-covalent complex. Our approach offers a simple and versatile route to convert peptides and proteins into potent covalent binders.

Indexed as

CysteineLysineIndicators and ReagentsMethacrylatesPeptidesProteinsCysteineIndicators and ReagentsLysineMethacrylatesPeptidesProteins

Identifiers

PMID38040731
PMCPMC10692228
OpenAlexW4389246097

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.