Evidence map›Paper›PMID 34018207›Full record

ArticleThe EMBO journal2021

Structural basis of TRAPPIII-mediated Rab1 activation.

Aaron Mn Joiner, Ben P Phillips, Kumar Yugandhar, Ethan J Sanford, Marcus B Smolka, Haiyuan Yu, Elizabeth A Miller, J Christopher Fromme

Open access · hybridAbstract read
In one paragraph

Article in The EMBO journal, 2021. 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
3.0field-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, 43 citations in OpenAlex.

  1. Article
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  10. Structural basis for Rab6 activation by the Ric1-Rgp1 complex.bioRxiv : the preprint server for biology · 2024
    Article
  11. Article
  12. Article
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  14. Structure of the metazoan Rab7 GEF complex Mon1-Ccz1-Bulli.Proceedings of the National Academy of Sciences of the United States of America · 2023
    Article
  15. Article
  16. Review
  17. Article
  18. Review
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  20. Structure of the Mon1-Ccz1 complex reveals molecular basis of membrane binding for Rab7 activation.Proceedings of the National Academy of Sciences of the United States of America · 2022
    Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

8 authors at 2 institutions in 2 countries.

Aaron Mn JoinerDepartment of Molecular Biology and Genetics/Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY, USA.ORCID 0000-0001-9049-2384
Ben P PhillipsMRC Laboratory of Molecular Biology, Cambridge, UK.ORCID 0000-0001-9117-4695
Kumar YugandharDepartment of Computational Biology/Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY, USA.ORCID 0000-0003-1141-4439
Ethan J SanfordDepartment of Molecular Biology and Genetics/Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY, USA.ORCID 0000-0003-0722-3058
Marcus B SmolkaDepartment of Molecular Biology and Genetics/Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY, USA.ORCID 0000-0001-9952-2885
Haiyuan YuDepartment of Computational Biology/Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY, USA.ORCID 0000-0001-7597-6049
Elizabeth A MillerMRC Laboratory of Molecular Biology, Cambridge, UK.ORCID 0000-0002-1033-8369
J Christopher FrommeDepartment of Molecular Biology and Genetics/Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY, USA.ORCID 0000-0002-8837-0473
Cornell University · USMRC Laboratory of Molecular Biology · GB

Funding

Coordination of ATR Signaling for Genetic Quality Control, Silencing, and DNA Repair During MeiosisR01HD095296 · NICHD · CORNELL UNIVERSITY · PI Paula Elaine Cohen, Marcus Smolka · 2018 to 2026
$4.2M
GTPase Regulation of the Golgi Complex (Diversity Supplement 2023)R35GM136258 · NIGMS · CORNELL UNIVERSITY · PI J Christopher Fromme · 2020 to 2026
$4.0M
Signaling Mechanisms in Genome Maintenance (Equipment Supplement 2023)R35GM141159 · NIGMS · CORNELL UNIVERSITY · PI Marcus Smolka · 2021 to 2026
$3.5M
Cellular Responses to DNA Replication StressR01GM097272 · NIGMS · CORNELL UNIVERSITY · PI SMOLKA, MARCUS · 2011 to 2020
$2.7M
Quantifying molecular consequences of human missense variants with large-scale interactome perturbation studiesR01GM125639 · NIGMS · CORNELL UNIVERSITY · PI ALEXOV, EMIL GEORGIEV, CLARK, ANDREW G · 2018 to 2021
$2.6M
Towards a comprehensive multiscale 3D human interactome networkR01GM124559 · NIGMS · CORNELL UNIVERSITY · PI YU, HAIYUAN · 2017 to 2020
$1.5M
Regulation of Rab activation at the Golgi complexR01GM116942 · NIGMS · CORNELL UNIVERSITY · PI FROMME, J CHRISTOPHER · 2016 to 2019
$1.2M
Biotechnology and Biological Sciences Research CouncilMedical Research Council MC_UP_1201/10Medical Research Council MRC_UP_1201/10NICHD NIH HHS R01 HD095296NIGMS NIH HHS R01 GM097272NIGMS NIH HHS R01 GM116942NIGMS NIH HHS R01 GM124559NIGMS NIH HHS R01 GM125639NIGMS NIH HHS R35 GM136258NIGMS NIH HHS R35 GM141159Wellcome Trust
6 · The paper itself

Abstract

The GTPase Rab1 is a master regulator of the early secretory pathway and is critical for autophagy. Rab1 activation is controlled by its guanine nucleotide exchange factor, the multisubunit TRAPPIII complex. Here, we report the 3.7 Å cryo-EM structure of the Saccharomyces cerevisiae TRAPPIII complex bound to its substrate Rab1/Ypt1. The structure reveals the binding site for the Rab1/Ypt1 hypervariable domain, leading to a model for how the complex interacts with membranes during the activation reaction. We determined that stable membrane binding by the TRAPPIII complex is required for robust activation of Rab1/Ypt1 in vitro and in vivo, and is mediated by a conserved amphipathic α-helix within the regulatory Trs85 subunit. Our results show that the Trs85 subunit serves as a membrane anchor, via its amphipathic helix, for the entire TRAPPIII complex. These findings provide a structural understanding of Rab activation on organelle and vesicle membranes.

Indexed as

Cryoelectron MicroscopyGuanine Nucleotide Exchange FactorsGuanosine DiphosphateGuanosine TriphosphateProtein Conformationrab GTP-Binding ProteinsSaccharomyces cerevisiae ProteinsVesicular Transport ProteinsGuanine Nucleotide Exchange FactorsGuanosine DiphosphateGuanosine Triphosphaterab GTP-Binding ProteinsSaccharomyces cerevisiae ProteinsVesicular Transport ProteinsYPT1 protein, S cerevisiaeautophagyGTPaseguanine nucleotide exchange factormembrane traffickingRab1

Identifiers

PMID34018207
PMCPMC8204860
OpenAlexW3160486644

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.