Evidence map›Paper›PMID 30992562›Full record

ArticleNature chemical biology2019

Dynamic assembly of protein disulfide isomerase in catalysis of oxidative folding.

Masaki Okumura, Kentaro Noi, Shingo Kanemura, Misaki Kinoshita, Tomohide Saio, Yuichi Inoue, Takaaki Hikima, Shuji Akiyama, Teru Ogura, Kenji Inaba

Abstract read
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In one paragraph

Article in Nature chemical biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.

0numbers the graph read from it
0cells of the map it votes in
47citing 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

47 citing papers in PubMed.

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  7. CaNature cell biology · 2025
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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

10 authors.

Masaki OkumuraInstitute of Multidisciplinary Research for Advanced Materials, Tohoku University, Sendai, Japan. okmasaki@mail.tagen.tohoku.ac.jp.
Kentaro NoiInstitute of Molecular Embryology and Genetics, Kumamoto University, Kumamoto, Japan.
Shingo KanemuraInstitute of Multidisciplinary Research for Advanced Materials, Tohoku University, Sendai, Japan.
Misaki KinoshitaFrontier Research Institute for Interdisciplinary Sciences, Tohoku University, Sendai, Japan.
Tomohide SaioDepartment of Chemistry, Faculty of Science, Hokkaido University, Sapporo, Japan.
Yuichi InoueInstitute of Multidisciplinary Research for Advanced Materials, Tohoku University, Sendai, Japan.
Takaaki HikimaRIKEN SPring-8 Center, RIKEN Harima Institute, Sayo-cho, Japan.
Shuji AkiyamaRIKEN SPring-8 Center, RIKEN Harima Institute, Sayo-cho, Japan.
Teru OguraInstitute of Molecular Embryology and Genetics, Kumamoto University, Kumamoto, Japan. ogura@gpo.kumamoto-u.ac.jp.
Kenji InabaInstitute of Multidisciplinary Research for Advanced Materials, Tohoku University, Sendai, Japan. kinaba@tagen.tohoku.ac.jp.ORCID http://orcid.org/0000-0001-8229-0467

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Time-resolved direct observations of proteins in action provide essential mechanistic insights into biological processes. Here, we present mechanisms of action of protein disulfide isomerase (PDI)-the most versatile disulfide-introducing enzyme in the endoplasmic reticulum-during the catalysis of oxidative protein folding. Single-molecule analysis by high-speed atomic force microscopy revealed that oxidized PDI is in rapid equilibrium between open and closed conformations, whereas reduced PDI is maintained in the closed state. In the presence of unfolded substrates, oxidized PDI, but not reduced PDI, assembles to form a face-to-face dimer, creating a central hydrophobic cavity with multiple redox-active sites, where substrates are likely accommodated to undergo accelerated oxidative folding. Such PDI dimers are diverse in shape and have different lifetimes depending on substrates. To effectively guide proper oxidative protein folding, PDI regulates conformational dynamics and oligomeric states in accordance with its own redox state and the configurations or folding states of substrates.

Indexed as

BiocatalysisProtein FoldingEndoplasmic ReticulumHumansMutationOxidation-ReductionProtein ConformationProtein Disulfide-IsomerasesSubstrate SpecificityProtein Disulfide-Isomerases

Identifiers

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.