Evidence map›Paper›PMID 30194371›Full record

ArticleNature communications2018

Sub-2 Å Ewald curvature corrected structure of an AAV2 capsid variant.

Yong Zi Tan, Sriram Aiyer, Mario Mietzsch, Joshua A Hull, Robert McKenna, Joshua Grieger, R Jude Samulski, Timothy S Baker, Mavis Agbandje-McKenna, Dmitry Lyumkis

Abstract readEvaluation Study
In one paragraph

Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.

0numbers the graph read from it
0cells of the map it votes in
52citing papers in PubMed
–field-weighted citation impact
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

52 citing papers in PubMed.

  1. Article
  2. Article
  3. The amazing AAV capsids: Into the structure-verse.Molecular therapy. Methods & clinical development · 2025
    Review
  4. Article
  5. Article
  6. Article
  7. AAV vector development, back to the future.Molecular therapy : the journal of the American Society of Gene Therapy · 2025
    Review
  8. Article
  9. Review
  10. Article
  11. Article
  12. Article
  13. Article
  14. Cryo-EM structure of adeno-associated virus 4 at 2.2 Å resolution.Acta crystallographica. Section D, Structural biology · 2023
    Article
  15. Article
  16. Article
  17. Review
  18. Review
  19. Review
  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

10 authors.

Yong Zi TanThe National Resource for Automated Molecular Microscopy, Simons Electron Microscopy Center, New York Structural Biology Center, 89 Convent Ave, New York, NY, 10027, USA.ORCID http://orcid.org/0000-0001-6656-6320
Sriram AiyerLaboratory of Genetics and Helmsley Center for Genomic Medicine, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA.ORCID http://orcid.org/0000-0001-6436-0521
Mario MietzschDepartment of Biochemistry and Molecular Biology, Center for Structural Biology, The McKnight Brain Institute, College of Medicine, University of Florida, Gainesville, FL, 32610, USA.
Joshua A HullDepartment of Biochemistry and Molecular Biology, Center for Structural Biology, The McKnight Brain Institute, College of Medicine, University of Florida, Gainesville, FL, 32610, USA.
Robert McKennaDepartment of Biochemistry and Molecular Biology, Center for Structural Biology, The McKnight Brain Institute, College of Medicine, University of Florida, Gainesville, FL, 32610, USA.
Joshua GriegerGene Therapy Center, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA.
R Jude SamulskiGene Therapy Center, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA.
Timothy S BakerDepartment of Chemistry and Biochemistry and Division of Biological Sciences, University of California-San Diego, La Jolla, CA, 92093, USA.
Mavis Agbandje-McKennaDepartment of Biochemistry and Molecular Biology, Center for Structural Biology, The McKnight Brain Institute, College of Medicine, University of Florida, Gainesville, FL, 32610, USA. mckenna@ufl.edu.
Dmitry LyumkisLaboratory of Genetics and Helmsley Center for Genomic Medicine, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA. dlyumkis@salk.edu.ORCID http://orcid.org/0000-0002-8124-7472

Funding

TRD #3: An automated and streamlined pipeline for in-situ molecular microscopyP41GM103310 · NIGMS · SCRIPPS RESEARCH INSTITUTE, THE · PI KIEFT, JEFFREY S · 2012 to 2021
$14.7M
Pilot and Feasibility Project ProgramP30GM103331 · NIGMS · MEDICAL UNIVERSITY OF SOUTH CAROLINA · PI KIRKWOOD, KEITH L · 2012 to 2016
$5.2M
MICROSCOPY &IMAGE ANALYSIS OF UNSTAINED MACROMOLECULESR01GM033050 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI BAKER, TIMOTHY S · 1985 to 2017
$4.3M
Structural basis for activity of and resistance to HIV integrase inhibitorsR01AI136680 · NIAID · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI LYUMKIS, DMITRY · 2017 to 2021
$3.5M
Breaking Barriers in Structural Biology: Novel CryoEM Methods and ApplicationsDP5OD021396 · OD · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI LYUMKIS, DMITRY · 2015 to 2019
$2.4M
The role of pH and protease activity in AAV viral transductionR01GM109524 · NIGMS · UNIVERSITY OF FLORIDA · PI AGBANDJE-MCKENNA, MAVIS, MCKENNA, ROBERT · 2014 to 2017
$2.0M
Division of Intramural Research, National Institute of Allergy and Infectious Diseases (Division of Intramural Research of the NIAID) 1R01AI136680NIAID NIH HHS R01 AI136680NIGMS NIH HHS P30 GM103331NIGMS NIH HHS P41 GM103310NIGMS NIH HHS R01 GM033050NIGMS NIH HHS R01 GM109524NIH HHS DP5 OD021396U.S. Department of Health & Human Services | NIH | NIH Office of the Director (OD) 5DP5OD021396
6 · The paper itself

Abstract

Single-particle cryogenic electron microscopy (cryo-EM) provides a powerful methodology for structural biologists, but the resolutions typically attained with experimentally determined structures have lagged behind microscope capabilities. Here, we exploit several technical advances to improve resolution, including per-particle contrast transfer function (CTF) refinement and correction for Ewald sphere curvature. The latter is demonstrated with several experimental samples and should become more standard as resolutions increase or at lower microscope accelerating voltages. The combined application of the described methods to micrographs recorded on a Titan Krios enables structure determination at ~1.86-Å resolution of an adeno-associated virus serotype 2 variant (AAV2), an important gene-delivery vehicle. The resulting structural details provide an improved model for understanding the biology of AAV that will guide future vector development for gene therapy.

Indexed as

CapsidCryoelectron MicroscopyDependovirusParvovirinaeRotavirus

Identifiers

PMID30194371
PMCPMC6128836

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.