Evidence map›Paper›PMID 36170828›Full record

ArticleCell reports2022

Unique structural features govern the activity of a human mitochondrial AAA+ disaggregase, Skd3.

Ryan R Cupo, Alexandrea N Rizo, Gabriel A Braun, Eric Tse, Edward Chuang, Kushol Gupta, Daniel R Southworth, James Shorter

Open access · goldAbstract read
In one paragraph

Article in Cell reports, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.

0numbers the graph read from it
0cells of the map it votes in
17citing papers in PubMed
2.0field-weighted citation impact, top 13% 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

17 citing papers in PubMed, 24 citations in OpenAlex.

  1. Article
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  5. Review
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  10. Design principles to tailor Hsp104 therapeutics.bioRxiv : the preprint server for biology · 2024
    Article
  11. TheeLife · 2024
    Article
  12. Article
  13. Dodecamer assembly of a metazoan AAAScience advances · 2023
    Article
  14. Article
  15. Article
  16. Article
  17. AAA+ proteins: one motor, multiple ways to work.Biochemical Society transactions · 2022
    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

8 authors at 3 institutions in 1 country.

Ryan R CupoDepartment of Biochemistry and Biophysics, University of Pennsylvania, Philadelphia, PA, USA; Pharmacology Graduate Group, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Alexandrea N RizoDepartment of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA, USA; Graduate Program in Chemical Biology, University of Michigan, Ann Arbor, MI, USA.
Gabriel A BraunChemistry and Chemical Biology Graduate Program, Institute for Neurodegenerative Diseases, University of California, San Francisco, San Francisco, CA, USA.
Eric TseDepartment of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA, USA.
Edward ChuangDepartment of Biochemistry and Biophysics, University of Pennsylvania, Philadelphia, PA, USA; Pharmacology Graduate Group, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Kushol GuptaDepartment of Biochemistry and Biophysics, University of Pennsylvania, Philadelphia, PA, USA.
Daniel R SouthworthDepartment of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA, USA. Electronic address: daniel.southworth@ucsf.edu.
James ShorterDepartment of Biochemistry and Biophysics, University of Pennsylvania, Philadelphia, PA, USA; Pharmacology Graduate Group, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA. Electronic address: jshorter@pennmedicine.upenn.edu.
University of Pennsylvania · USUniversity of California, San Francisco · USUniversity of Michigan–Ann Arbor · US

Funding

STRUCTURAL BIOLOGY TRAINING PROGRAMT32GM008275 · NIGMS · UNIVERSITY OF PENNSYLVANIA · PI WAND, A. JOSHUA · 1988 to 2018
$6.0M
Defining the mechanistic basis of a prion disaggregaseR01GM099836 · NIGMS · UNIVERSITY OF PENNSYLVANIA · PI SHORTER, JAMES · 2013 to 2024
$3.9M
Mechanisms of Protein Disaggregation and Turnover by AAA+ ChaperonesR01GM138690 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SOUTHWORTH, DANIEL RYLAND · 2021 to 2024
$1.9M
Isolating small-molecule enhancers of the human alpha-synuclein disaggregase machineryR21AG061784 · NIA · UNIVERSITY OF PENNSYLVANIA · PI SHORTER, JAMES · 2019 to 2020
$441k
Engineering mitochondrial protein disaggregases for neurodegenerative diseaseF31AG060672 · NIA · UNIVERSITY OF PENNSYLVANIA · PI CUPO, RYAN R · 2018 to 2020
$122k
NIA NIH HHS F31 AG060672NIA NIH HHS R21 AG061784NIGMS NIH HHS R01 GM099836NIGMS NIH HHS R01 GM138690NIGMS NIH HHS T32 GM008275
6 · The paper itself

Abstract

The AAA+ protein, Skd3 (human CLPB), solubilizes proteins in the mitochondrial intermembrane space, which is critical for human health. Skd3 variants with defective protein-disaggregase activity cause severe congenital neutropenia (SCN) and 3-methylglutaconic aciduria type 7 (MGCA7). How Skd3 disaggregates proteins remains poorly understood. Here, we report a high-resolution structure of a Skd3-substrate complex. Skd3 adopts a spiral hexameric arrangement that engages substrate via pore-loop interactions in the nucleotide-binding domain (NBD). Substrate-bound Skd3 hexamers stack head-to-head via unique, adaptable ankyrin-repeat domain (ANK)-mediated interactions to form dodecamers. Deleting the ANK linker region reduces dodecamerization and disaggregase activity. We elucidate apomorphic features of the Skd3 NBD and C-terminal domain that regulate disaggregase activity. We also define how Skd3 subunits collaborate to disaggregate proteins. Importantly, SCN-linked subunits sharply inhibit disaggregase activity, whereas MGCA7-linked subunits do not. These advances illuminate Skd3 structure and mechanism, explain SCN and MGCA7 inheritance patterns, and suggest therapeutic strategies.

Indexed as

AnkyrinsHeat-Shock ProteinsAdenosine TriphosphateHumansModels, MolecularNucleotidesProtein TransportAdenosine TriphosphateAnkyrinsHeat-Shock ProteinsNucleotidesAAA+ proteins, protein aggregationchaperoneCP: Cell biologydisaggregasemitochondriamitochondrial disorderstherapeutics

Identifiers

PMID36170828
PMCPMC9584538
OpenAlexW4297373146

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.