Evidence map›Paper›PMID 28814505›Full record

ArticleMolecular biology of the cell2017

The molecular architecture of the yeast spindle pole body core determined by Bayesian integrative modeling.

Shruthi Viswanath, Massimiliano Bonomi, Seung Joong Kim, Vadim A Klenchin, Keenan C Taylor, King C Yabut, Neil T Umbreit, Heather A Van Epps, Janet Meehl, Michele H Jones and 7 more

Open access · greenAbstract read
In one paragraph

Article in Molecular biology of the cell, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.

0numbers the graph read from it
0cells of the map it votes in
26citing papers in PubMed
3.1field-weighted citation impact, top 8% 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

26 citing papers in PubMed, 48 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. The Use of Yeast in Biosensing.Microorganisms · 2022
    Review
  6. Article
  7. Moonlighting at the Poles: Non-Canonical Functions of Centrosomes.Frontiers in cell and developmental biology · 2022
    Review
  8. Article
  9. Article
  10. Article
  11. Review
  12. Article
  13. Article
  14. FRET Microscopy in Yeast.Biosensors · 2019
    Review
  15. Article
  16. Article
  17. Review
  18. Optimizing model representation for integrative structure determination of macromolecular assemblies.Proceedings of the National Academy of Sciences of the United States of America · 2019
    Article
  19. AI-Assisted Forward Modeling of Biological Structures.Frontiers in cell and developmental biology · 2019
    Article
  20. Review
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

17 authors at 4 institutions in 2 countries.

Shruthi ViswanathDepartment of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158.
Massimiliano BonomiDepartment of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158 mb2006@cam.ac.uk sali@salilab.org emuller@uw.edu.
Seung Joong KimDepartment of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158.
Vadim A KlenchinDepartment of Biochemistry, University of Wisconsin-Madison, Madison, WI 53706.
Keenan C TaylorDepartment of Biochemistry, University of Wisconsin-Madison, Madison, WI 53706.
King C YabutDepartment of Biochemistry, University of Washington, Seattle, WA 98195.
Neil T UmbreitDepartment of Biochemistry, University of Washington, Seattle, WA 98195.
Heather A Van EppsDepartment of Biochemistry, University of Washington, Seattle, WA 98195.
Janet MeehlDepartment of Molecular, Cellular and Developmental Biology, University of Colorado-Boulder, Boulder, CO 80309.
Michele H JonesDepartment of Molecular, Cellular and Developmental Biology, University of Colorado-Boulder, Boulder, CO 80309.
Daniel RusselDepartment of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158.
Javier A Velazquez-MurielDepartment of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158.
Mark WineyDepartment of Molecular, Cellular and Developmental Biology, University of Colorado-Boulder, Boulder, CO 80309.
Ivan RaymentDepartment of Biochemistry, University of Wisconsin-Madison, Madison, WI 53706.
Trisha N DavisDepartment of Biochemistry, University of Washington, Seattle, WA 98195.
Andrej SaliDepartment of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158 mb2006@cam.ac.uk sali@salilab.org emuller@uw.edu.
Eric G MullerDepartment of Biochemistry, University of Washington, Seattle, WA 98195 mb2006@cam.ac.uk sali@salilab.org emuller@uw.edu.
QB3 · USUniversity of Washington · USUniversity of Colorado Boulder · USUniversity of Wisconsin–Madison · US

Funding

X-ray Absorption Spectroscopy (XAS) pp.711-759P41GM103393 · NIGMS · STANFORD UNIVERSITY · PI HODGSON, KEITH O · 2012 to 2019
$30.6M
TR&D Project 4. The Imaging Stage: Multiscale Spatiotemporal Modeling of Macromolecular Systems in Cellular NeighborhoodsP41GM109824 · NIGMS · ROCKEFELLER UNIVERSITY · PI ROUT, MICHAEL P · 2014 to 2023
$18.8M
The Yeast Centrosome - Structure Assembly & FunctionP01GM105537 · NIGMS · UNIVERSITY OF COLORADO · PI WINEY, MARK · 2014 to 2018
$8.3M
IMP: Software for Hybrid Determination of Macromolecular Assembly StructuresR01GM083960 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SALI, ANDREJ · 2008 to 2024
$5.2M
High Performance Computer for Computational BiosciencesS10OD021596 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SALI, ANDREJ · 2016 to 2016
$443k
NIGMS NIH HHS P01 GM105537NIGMS NIH HHS P41 GM103393NIGMS NIH HHS P41 GM109824NIH HHS S10 OD021596
6 · The paper itself

Abstract

Microtubule-organizing centers (MTOCs) form, anchor, and stabilize the polarized network of microtubules in a cell. The central MTOC is the centrosome that duplicates during the cell cycle and assembles a bipolar spindle during mitosis to capture and segregate sister chromatids. Yet, despite their importance in cell biology, the physical structure of MTOCs is poorly understood. Here we determine the molecular architecture of the core of the yeast spindle pole body (SPB) by Bayesian integrative structure modeling based on in vivo fluorescence resonance energy transfer (FRET), small-angle x-ray scattering (SAXS), x-ray crystallography, electron microscopy, and two-hybrid analysis. The model is validated by several methods that include a genetic analysis of the conserved PACT domain that recruits Spc110, a protein related to pericentrin, to the SPB. The model suggests that calmodulin can act as a protein cross-linker and Spc29 is an extended, flexible protein. The model led to the identification of a single, essential heptad in the coiled-coil of Spc110 and a minimal PACT domain. It also led to a proposed pathway for the integration of Spc110 into the SPB.

Indexed as

Bayes TheoremCell CycleCentrosomeComputer SimulationCrystallography, X-RayMicrotubule-Organizing CenterMicrotubulesMitosisNuclear ProteinsSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsSpindle ApparatusSpindle Pole BodiesStructure-Activity RelationshipX-Ray DiffractionNuclear ProteinsSaccharomyces cerevisiae Proteins

Identifiers

PMID28814505
PMCPMC5687031
OpenAlexW2747530027

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-SA
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.