Evidence map›Paper›PMID 30104359›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2018

Proteomic analysis of monolayer-integrated proteins on lipid droplets identifies amphipathic interfacial α-helical membrane anchors.

Camille I Pataki, João Rodrigues, Lichao Zhang, Junyang Qian, Bradley Efron, Trevor Hastie, Joshua E Elias, Michael Levitt, Ron R Kopito

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.

0numbers the graph read from it
0cells of the map it votes in
23citing 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

23 citing papers in PubMed.

  1. Article
  2. Review
  3. Selenoprotein K at the intersection of cellular pathways.Archives of biochemistry and biophysics · 2025
    Review
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  5. Article
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  16. Review
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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

9 authors.

Camille I PatakiDepartment of Biochemistry, Stanford University, Stanford, CA 94305.
João RodriguesDepartment of Structural Biology, Stanford University, Stanford, CA 94305.
Lichao ZhangDepartment of Chemical and Systems Biology, Stanford University, Stanford, CA 94305.
Junyang QianDepartment of Statistics, Stanford University, Stanford, CA 94305.
Bradley EfronDepartment of Statistics, Stanford University, Stanford, CA 94305.
Trevor HastieDepartment of Statistics, Stanford University, Stanford, CA 94305.ORCID 0000-0002-0164-3142
Joshua E EliasDepartment of Chemical and Systems Biology, Stanford University, Stanford, CA 94305.
Michael LevittDepartment of Structural Biology, Stanford University, Stanford, CA 94305.
Ron R KopitoDepartment of Biology, Stanford University, Stanford, CA 94305 kopito@stanford.edu.

Funding

Supplement to Enhance Wellness and Resiliency in the Graduate EnvironmentT32GM007276 · NIGMS · STANFORD UNIVERSITY · PI MORRISON, ASHBY J. · 1985 to 2023
$32.9M
The Ubiquitin Proteasome System in Quality ControlR01GM074874 · NIGMS · STANFORD UNIVERSITY · PI KOPITO, RON R · 2006 to 2022
$8.0M
New Statistical Methods for Medical Signals and ImagesR01EB001988 · NIBIB · STANFORD UNIVERSITY · PI JOHNSTONE, IAIN M · 2003 to 2018
$6.1M
Emergent Properties of Complex Systems: From Atoms to Macromolecules; from Humans to SocietiesR35GM122543 · NIGMS · STANFORD UNIVERSITY · PI MICHAEL LEVITT · 2017 to 2026
$5.1M
NIBIB NIH HHS R01 EB001988NIGMS NIH HHS R01 GM074874NIGMS NIH HHS R35 GM122543NIGMS NIH HHS T32 GM007276
6 · The paper itself

Abstract

Despite not spanning phospholipid bilayers, monotopic integral proteins (MIPs) play critical roles in organizing biochemical reactions on membrane surfaces. Defining the structural basis by which these proteins are anchored to membranes has been hampered by the paucity of unambiguously identified MIPs and a lack of computational tools that accurately distinguish monolayer-integrating motifs from bilayer-spanning transmembrane domains (TMDs). We used quantitative proteomics and statistical modeling to identify 87 high-confidence candidate MIPs in lipid droplets, including 21 proteins with predicted TMDs that cannot be accommodated in these monolayer-enveloped organelles. Systematic cysteine-scanning mutagenesis showed the predicted TMD of one candidate MIP, DHRS3, to be a partially buried amphipathic α-helix in both lipid droplet monolayers and the cytoplasmic leaflet of endoplasmic reticulum membrane bilayers. Coarse-grained molecular dynamics simulations support these observations, suggesting that this helix is most stable at the solvent-membrane interface. The simulations also predicted similar interfacial amphipathic helices when applied to seven additional MIPs from our dataset. Our findings suggest that interfacial helices may be a common motif by which MIPs are integrated into membranes, and provide high-throughput methods to identify and study MIPs.

Indexed as

ProteomicsHEK293 CellsHumansLipid DropletsMembrane ProteinsMutagenesisProtein DomainsProtein Structure, SecondaryMembrane Proteinslipid dropletslipid monolayermembrane insertionproteomics

Identifiers

PMID30104359
PMCPMC6126764

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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.