Evidence map›Paper›PMID 31854299›Full record

ArticleeLife2019

De novo design of a homo-trimeric amantadine-binding protein.

Jooyoung Park, Brinda Selvaraj, Andrew C McShan, Scott E Boyken, Kathy Y Wei, Gustav Oberdorfer, William DeGrado, Nikolaos G Sgourakis, Matthew J Cuneo, Dean Aa Myles and 1 more

Open access · goldAbstract read
In one paragraph

Article in eLife, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing papers in PubMed
1.4field-weighted citation impact, top 18% 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

15 citing papers in PubMed, 22 citations in OpenAlex.

  1. Review
  2. Article
  3. Article
  4. Review
  5. Article
  6. Design and Engineering of Miniproteins.ACS bio & med chem Au · 2022
    Review
  7. De novo design of protein homodimers containing tunable symmetric protein pockets.Proceedings of the National Academy of Sciences of the United States of America · 2022
    Article
  8. Review
  9. Protein Assembly by Design.Chemical reviews · 2021
    Review
  10. Article
  11. Review
  12. Harnessing Conformational Plasticity to Generate Designer Enzymes.Journal of the American Chemical Society · 2020
    Review
  13. Article
  14. Article
  15. 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

11 authors at 5 institutions in 2 countries.

Jooyoung ParkDepartment of Biochemistry, University of Washington, Seattle, United States.ORCID 0000-0001-8557-641X
Brinda SelvarajNeutron Sciences Directorate, Oak Ridge National Laboratory, Oak Ridge, United States.
Andrew C McShanDepartment of Chemistry and Biochemistry, University of California, Santa Cruz, Santa Cruz, United States.ORCID 0000-0002-3212-9867
Scott E BoykenDepartment of Biochemistry, University of Washington, Seattle, United States.ORCID 0000-0002-5378-0632
Kathy Y WeiDepartment of Biochemistry, University of Washington, Seattle, United States.ORCID 0000-0002-8794-1385
Gustav OberdorferInstitute of Biochemistry, Graz University of Technology, Graz, Austria.
William DeGradoDepartment of Pharmaceutical Chemistry, University of California, San Francisco, San Francisco, United States.
Nikolaos G SgourakisDepartment of Chemistry and Biochemistry, University of California, Santa Cruz, Santa Cruz, United States.ORCID 0000-0003-3655-3902
Matthew J CuneoNeutron Sciences Directorate, Oak Ridge National Laboratory, Oak Ridge, United States.ORCID 0000-0002-1475-6656
Dean Aa MylesNeutron Sciences Directorate, Oak Ridge National Laboratory, Oak Ridge, United States.ORCID 0000-0002-7693-4964
David BakerDepartment of Biochemistry, University of Washington, Seattle, United States.ORCID 0000-0001-7896-6217
University of Washington · USOak Ridge National Laboratory · USUniversity of California, Santa Cruz · USGraz University of Technology · ATUniversity of California, San Francisco · US

Funding

An integrative structural biology approach to understanding metabolite recognition by cellular receptorsR35GM125034 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI SGOURAKIS, NIKOLAOS · 2017 to 2025
$4.7M
Molecular mechanism of antigen editing by Class-I MHC ChaperonesR01AI143997 · NIAID · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI SGOURAKIS, NIKOLAOS · 2019 to 2023
$4.0M
800 MHz NMR Spectrometer and Helium CryoprobeS10OD018455 · OD · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI MILLHAUSER, GLENN L · 2015 to 2015
$2.0M
Burroughs Wellcome Fund Career Award at the Scientific InterfaceNIAID NIH HHS R01 AI143997NIGMS NIH HHS 1R35GM125034-01NIGMS NIH HHS R35 GM125034NIH HHS S10 OD018455Washington Research Foundation Innovation Postdoctoral Fellowship
6 · The paper itself

Abstract

The computational design of a symmetric protein homo-oligomer that binds a symmetry-matched small molecule larger than a metal ion has not yet been achieved. We used de novo protein design to create a homo-trimeric protein that binds the C

Indexed as

Protein EngineeringAmantadineBinding SitesComputational ChemistryComputer SimulationCrystallography, X-RayHumansHydrogen BondingMagnetic Resonance SpectroscopyModels, MolecularProtein MultimerizationProteinsSmall Molecule LibrariesAmantadineProteinsSmall Molecule Librariesamantadinede novo protein designE. colimolecular biophysicsRosettastructural biologysymmetry

Identifiers

PMID31854299
PMCPMC6922598
OpenAlexW2994725236

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.