Evidence map›Paper›PMID 34271011›Full record

ArticleJournal of molecular biology2021

The Stability Landscape of de novo TIM Barrels Explored by a Modular Design Approach.

Sergio Romero-Romero, Miguel Costas, Daniel-Adriano Silva Manzano, Sina Kordes, Erendira Rojas-Ortega, Cinthya Tapia, Yasel Guerra, Sooruban Shanmugaratnam, Adela Rodríguez-Romero, David Baker and 2 more

Open access · hybridAbstract read
In one paragraph

Article in Journal of molecular biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.

0numbers the graph read from it
0cells of the map it votes in
16citing papers in PubMed
2.0field-weighted citation impact, top 12% 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

16 citing papers in PubMed, 33 citations in OpenAlex.

  1. Article
  2. Stability and cooperativity in chimeric de novo TIM barrels via quarter swapping.Protein science : a publication of the Protein Society · 2026
    Article
  3. Review
  4. Deciphering the folding code of collagens.Nature communications · 2025
    Article
  5. Diversifying de novo TIM barrels by hallucination.Protein science : a publication of the Protein Society · 2024
    Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. Review
  14. Evolution, folding, and design of TIM barrels and related proteins.Current opinion in structural biology · 2021
    Review
  15. Extension of a de novo TIM barrel with a rationally designed secondary structure element.Protein science : a publication of the Protein Society · 2021
    Article
  16. Tight and specific lanthanide binding in a de novo TIM barrel with a large internal cavity designed by symmetric domain fusion.Proceedings of the National Academy of Sciences of the United States of America · 2020
    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

12 authors at 3 institutions in 3 countries.

Sergio Romero-RomeroLaboratorio de Fisicoquímica e Ingeniería de Proteínas, Departamento de Bioquímica, Facultad de Medicina, Universidad Nacional Autónoma de México, 04510 Mexico City, Mexico; Department of Biochemistry, University of Bayreuth, 95447 Bayreuth, Germany.
Miguel CostasLaboratorio de Biofisicoquímica, Departamento de Fisicoquímica, Facultad de Química, Universidad Nacional Autónoma de México, 04510 Mexico City, Mexico.
Daniel-Adriano Silva ManzanoDepartment of Biochemistry, University of Washington, 98195 Seattle, USA; Institute for Protein Design, University of Washington, 98195 Seattle, USA.
Sina KordesDepartment of Biochemistry, University of Bayreuth, 95447 Bayreuth, Germany.
Erendira Rojas-OrtegaLaboratorio de Fisicoquímica e Ingeniería de Proteínas, Departamento de Bioquímica, Facultad de Medicina, Universidad Nacional Autónoma de México, 04510 Mexico City, Mexico.
Cinthya TapiaLaboratorio de Fisicoquímica e Ingeniería de Proteínas, Departamento de Bioquímica, Facultad de Medicina, Universidad Nacional Autónoma de México, 04510 Mexico City, Mexico.
Yasel GuerraLaboratorio de Fisicoquímica e Ingeniería de Proteínas, Departamento de Bioquímica, Facultad de Medicina, Universidad Nacional Autónoma de México, 04510 Mexico City, Mexico.
Sooruban ShanmugaratnamDepartment of Biochemistry, University of Bayreuth, 95447 Bayreuth, Germany.
Adela Rodríguez-RomeroInstituto de Química, Universidad Nacional Autónoma de México, 04510 Mexico City, Mexico.
David BakerDepartment of Biochemistry, University of Washington, 98195 Seattle, USA; Institute for Protein Design, University of Washington, 98195 Seattle, USA. Electronic address: dabaker@uw.edu.
Birte HöckerDepartment of Biochemistry, University of Bayreuth, 95447 Bayreuth, Germany. Electronic address: birte.hoecker@uni-bayreuth.de.
D Alejandro Fernández-VelascoLaboratorio de Fisicoquímica e Ingeniería de Proteínas, Departamento de Bioquímica, Facultad de Medicina, Universidad Nacional Autónoma de México, 04510 Mexico City, Mexico. Electronic address: fdaniel@unam.mx.
Universidad Nacional Autónoma de México · MXUniversity of Bayreuth · DEUniversity of Washington · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The ability to design stable proteins with custom-made functions is a major goal in biochemistry with practical relevance for our environment and society. Understanding and manipulating protein stability provide crucial information on the molecular determinants that modulate structure and stability, and expand the applications of de novo proteins. Since the (β/⍺)

Indexed as

Protein Conformation, alpha-HelicalProtein Conformation, beta-StrandProtein FoldingProtein StabilityEvolution, MolecularHydrophobic and Hydrophilic InteractionsModels, MolecularProteinsTemperatureProteinsde novo protein designnon-additive effectsprotein folding and stabilitystability landscape(β/α)(8)-barrel

Identifiers

PMID34271011
PMCPMC8404036
OpenAlexW3179499565

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.