Evidence map›Paper›PMID 38570702›Full record

ArticleNature nanotechnology2024

De novo design of pH-responsive self-assembling helical protein filaments.

Hao Shen, Eric M Lynch, Susrut Akkineni, Joseph L Watson, Justin Decarreau, Neville P Bethel, Issa Benna, William Sheffler, Daniel Farrell, Frank DiMaio and 4 more

Open access · hybridAbstract read
In one paragraph

Article in Nature nanotechnology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.

0numbers the graph read from it
0cells of the map it votes in
32citing papers in PubMed
7.0field-weighted citation impact, top 1% 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

32 citing papers in PubMed, 60 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Protein design and RNA design: Perspectives.Quantitative biology (Beijing, China) · 2026
    Article
  5. Review
  6. Article
  7. Chemical reviews · 2026
    Review
  8. Article
  9. Review
  10. Article
  11. Article
  12. Article
  13. Review
  14. Designability of α-Helical Protein Filaments.Sub-cellular biochemistry · 2026
    Review
  15. Article
  16. Article
  17. Article
  18. Tumor Microenvironment-Responsive Nanomedicines for Potentiating Cancer Immunotherapy.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025
    Review
  19. Article
  20. 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

14 authors at 4 institutions in 2 countries.

Hao ShenDepartment of Biochemistry, University of Washington, Seattle, WA, USA. shenh2@uw.edu.ORCID http://orcid.org/0000-0001-8875-6491
Eric M LynchDepartment of Biochemistry, University of Washington, Seattle, WA, USA.ORCID http://orcid.org/0000-0001-5897-5167
Susrut AkkineniDepartment of Materials Science and Engineering, University of Washington, Seattle, WA, USA.ORCID http://orcid.org/0000-0001-8035-0016
Joseph L WatsonDepartment of Biochemistry, University of Washington, Seattle, WA, USA.
Justin DecarreauDepartment of Biochemistry, University of Washington, Seattle, WA, USA.
Neville P BethelDepartment of Biochemistry, University of Washington, Seattle, WA, USA.ORCID http://orcid.org/0000-0001-7576-9613
Issa BennaInstitute for Protein Design, University of Washington, Seattle, WA, USA.
William ShefflerDepartment of Biochemistry, University of Washington, Seattle, WA, USA.
Daniel FarrellDepartment of Biochemistry, University of Washington, Seattle, WA, USA.
Frank DiMaioDepartment of Biochemistry, University of Washington, Seattle, WA, USA.
Emmanuel DeriveryMRC Laboratory of Molecular Biology, Cambridge, UK.
James J De YoreoDepartment of Materials Science and Engineering, University of Washington, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-9541-733X
Justin KollmanDepartment of Biochemistry, University of Washington, Seattle, WA, USA.
David BakerDepartment of Biochemistry, University of Washington, Seattle, WA, USA. dabaker@uw.edu.ORCID http://orcid.org/0000-0001-7896-6217
University of Washington · USMRC Laboratory of Molecular Biology · GBPacific Northwest National Laboratory · USHoward Hughes Medical Institute · US

Funding

The Structure and Function of Metabolic FilamentsR01GM118396 · NIGMS · UNIVERSITY OF WASHINGTON · PI KOLLMAN, JUSTIN M · 2016 to 2023
$2.9M
Structure and function of metabolic enzyme assembliesR35GM149542 · NIGMS · UNIVERSITY OF WASHINGTON · PI Justin M Kollman · 2023 to 2026
$2.2M
Alfred P. Sloan Foundation G-2021-16899Howard Hughes Medical Institute (HHMI) Hanna Gray Fellowship via GT11817Human Frontier Science Program (HFSP) Career Development Award CDA00034/2017Human Frontier Science Program (HFSP) RGP0061National Science Foundation (NSF) Graduate Research Fellowship award 1762114 and 2140004NIGMS NIH HHS R01 GM118396NIGMS NIH HHS R35 GM149542RCUK | Medical Research Council (MRC) MC_UP_1201/13United States Department of Defense | Defense Advanced Research Projects Agency (DARPA) Biostasis W911NF1920017U.S. Department of Energy (DOE) Award FWP 72448U.S. Department of Energy (DOE) DE-SC0019288U.S. Department of Health & Human Services | National Institutes of Health (NIH) R35GM149542, R01GM118396 and S10 OD032290
6 · The paper itself

Abstract

Biological evolution has led to precise and dynamic nanostructures that reconfigure in response to pH and other environmental conditions. However, designing micrometre-scale protein nanostructures that are environmentally responsive remains a challenge. Here we describe the de novo design of pH-responsive protein filaments built from subunits containing six or nine buried histidine residues that assemble into micrometre-scale, well-ordered fibres at neutral pH. The cryogenic electron microscopy structure of an optimized design is nearly identical to the computational design model for both the subunit internal geometry and the subunit packing into the fibre. Electron, fluorescent and atomic force microscopy characterization reveal a sharp and reversible transition from assembled to disassembled fibres over 0.3 pH units, and rapid fibre disassembly in less than 1 s following a drop in pH. The midpoint of the transition can be tuned by modulating buried histidine-containing hydrogen bond networks. Computational protein design thus provides a route to creating unbound nanomaterials that rapidly respond to small pH changes.

Indexed as

HistidineCryoelectron MicroscopyHydrogen BondingHydrogen-Ion ConcentrationModels, MolecularNanostructuresProteinsHistidineProteins

Identifiers

PMID38570702
PMCPMC11286511
OpenAlexW4393851449

What OpenQuestion holds

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Registered trials

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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.