Evidence map›Paper›PMID 30911187›Full record

ArticleNature structural & molecular biology2019

Evolution from covalent conjugation to non-covalent interaction in the ubiquitin-like ATG12 system.

Yu Pang, Hayashi Yamamoto, Hirokazu Sakamoto, Masahide Oku, Joe Kimanthi Mutungi, Mayurbhai Himatbhai Sahani, Yoshitaka Kurikawa, Kiyoshi Kita, Nobuo N Noda, Yasuyoshi Sakai and 2 more

Abstract read
PubMed Publisher
In one paragraph

Article in Nature structural & molecular biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.

0numbers the graph read from it
0cells of the map it votes in
32citing papers in PubMed
3.7field-weighted citation impact, top 7% 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

32 citing papers in PubMed, 48 citations in OpenAlex.

  1. Article
  2. Review
  3. Article
  4. Article
  5. Article
  6. Article
  7. Article
  8. Frontiers in veterinary science · 2025
    Article
  9. Review
  10. Article
  11. Review
  12. Review
  13. Autophagy genes in biology and disease.Nature reviews. Genetics · 2023
    Review
  14. Article
  15. Article
  16. Article
  17. Article
  18. Review
  19. Article
  20. Article
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

12 authors at 6 institutions in 4 countries.

Yu Pang *State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China.
Hayashi Yamamoto *Department of Biochemistry and Molecular Biology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Hirokazu SakamotoDepartment of Biochemistry and Molecular Biology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Masahide OkuDivision of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Kyoto, Japan.
Joe Kimanthi MutungiDepartment of Biochemistry and Molecular Biology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.ORCID http://orcid.org/0000-0003-2170-7577
Mayurbhai Himatbhai SahaniDepartment of Biochemistry and Molecular Biology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Yoshitaka KurikawaDepartment of Biochemistry and Molecular Biology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.ORCID http://orcid.org/0000-0003-2776-8856
Kiyoshi KitaDepartment of Biomedical Chemistry, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Nobuo N NodaLaboratory of Structural Biology, Institute of Microbial Chemistry (BIKAKEN), Tokyo, Japan.ORCID http://orcid.org/0000-0002-6940-8069
Yasuyoshi SakaiDivision of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Kyoto, Japan.ORCID http://orcid.org/0000-0002-9831-3085
Honglin JiaState Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. jiahonglin@caas.cn.ORCID http://orcid.org/0000-0001-7458-9565
Noboru MizushimaDepartment of Biochemistry and Molecular Biology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan. nmizu@m.u-tokyo.ac.jp.ORCID http://orcid.org/0000-0002-6258-6444
The University of Tokyo · JPChinese Academy of Agricultural Sciences · CNKyoto University · JPMicrobial Chemistry Research Foundation · JPNagasaki University · JPUniversity of Ghana · GH

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Ubiquitin or ubiquitin-like proteins can be covalently conjugated to multiple proteins that do not necessarily have binding interfaces. Here, we show that an evolutionary transition from covalent conjugation to non-covalent interaction has occurred in the ubiquitin-like autophagy-related 12 (ATG12) conjugation system. ATG12 is covalently conjugated to its sole substrate, ATG5, by a ubiquitylation-like mechanism. However, the apicomplexan parasites Plasmodium and Toxoplasma and some yeast species such as Komagataella phaffii (previously Pichia pastoris) lack the E2-like enzyme ATG10 and the most carboxy (C)-terminal glycine of ATG12, both of which are required for covalent linkage. Instead, ATG12 in these organisms forms a non-covalent complex with ATG5. This non-covalent ATG12-ATG5 complex retains the ability to facilitate ATG8-phosphatidylethanolamine conjugation. These results suggest that ubiquitin-like covalent conjugation can evolve to a simpler non-covalent interaction, most probably when the system has a limited number of targets.

Indexed as

AnimalsAutophagosomesAutophagy-Related ProteinsCarrier ProteinsCrystallography, X-RayEndoplasmic ReticulumHumansLiposomesMembranesMiceMutationPhospholipidsSchizosaccharomycesUbiquitinUbiquitinsAutophagy-Related ProteinsCarrier Proteinslipid transfer proteinLiposomesPhospholipidsUbiquitinUbiquitins

Identifiers

PMID30911187
OpenAlexW2923635199

What OpenQuestion holds

Textmetadata
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.