Evidence map›Paper›PMID 31235585›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2019

Structural basis for adenylation and thioester bond formation in the ubiquitin E1.

Zachary S Hann, Cheng Ji, Shaun K Olsen, Xuequan Lu, Michaelyn C Lux, Derek S Tan, Christopher D Lima

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 53 papers.

0numbers the graph read from it
0cells of the map it votes in
53citing 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

53 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Article
  6. Article
  7. Article
  8. Review
  9. Review
  10. Article
  11. ThiF-Like Enzyme Chemistry in Primary and Secondary Metabolism.Chembiochem : a European journal of chemical biology · 2025
    Review
  12. Article
  13. Review
  14. Article
  15. Article
  16. Chemical Tools for Probing the Ub/Ubl Conjugation Cascades.Chembiochem : a European journal of chemical biology · 2025
    Review
  17. Article
  18. Article
  19. Review
  20. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

7 authors.

Zachary S HannStructural Biology Program, Sloan Kettering Institute, New York, NY 10065.ORCID 0000-0003-4284-5979
Cheng JiChemical Biology Program, Sloan Kettering Institute, New York, NY 10065.
Shaun K OlsenStructural Biology Program, Sloan Kettering Institute, New York, NY 10065.ORCID 0000-0002-1265-7101
Xuequan LuChemical Biology Program, Sloan Kettering Institute, New York, NY 10065.
Michaelyn C LuxTri-Institutional PhD Program in Chemical Biology, Memorial Sloan Kettering Cancer Center, New York, NY 10065.
Derek S TanTri-Institutional PhD Program in Chemical Biology, Memorial Sloan Kettering Cancer Center, New York, NY 10065; tand@mskcc.org limac@mskcc.org.
Christopher D LimaStructural Biology Program, Sloan Kettering Institute, New York, NY 10065; tand@mskcc.org limac@mskcc.org.ORCID 0000-0002-9163-6092

Funding

X-RAY CRYSTALLOGRAPHYP30CA008748 · NCI · SLOAN-KETTERING INSTITUTE FOR CANCER RES · PI Nicholas D Socci · 1985 to 2026
$347.4M
Overall EvaluationP41GM103403 · NIGMS · CORNELL UNIVERSITY · PI EALICK, STEVEN E · 2012 to 2017
$14.3M
Structural studies of RNA processing and ubiquitin-like protein modificationR35GM118080 · NIGMS · SLOAN-KETTERING INST CAN RESEARCH · PI CHRISTOPHER D. LIMA · 2016 to 2026
$5.0M
Structural studies of ubiquitin-like protein modificationR01GM065872 · NIGMS · WEILL MEDICAL COLLEGE OF CORNELL UNIV · PI LIMA, CHRISTOPHER D. · 2002 to 2015
$4.9M
Structure and Function of the Essential Cell Cycle Regulator Cdc34R01GM128731 · NIGMS · UNIVERSITY OF TEXAS HLTH SCIENCE CENTER · PI Shaun Olsen · 2019 to 2026
$2.5M
Structural and Functional Studies of Eukaryotic ExosomesR01GM079196 · NIGMS · SLOAN-KETTERING INST CAN RESEARCH · PI LIMA, CHRISTOPHER D. · 2008 to 2015
$2.5M
Pixel Array Detector for X-ray CrystallographyS10RR029205 · NCRR · CORNELL UNIVERSITY · PI EALICK, STEVEN E · 2010 to 2010
$1.8M
Rational Design of Adenylation Enzyme InhibitorsR01GM100477 · NIGMS · SLOAN-KETTERING INST CAN RESEARCH · PI TAN, DEREK S · 2012 to 2015
$1.8M
Tri-Institutional PhD Program in Chemical BiologyT32GM115327 · NIGMS · WEILL MEDICAL COLL OF CORNELL UNIV · PI TAN, DEREK S · 2015 to 2019
$741k
Howard Hughes Medical InstituteNCI NIH HHS P30 CA008748NCRR NIH HHS S10 RR029205NIGMS NIH HHS P41 GM103403NIGMS NIH HHS R01 GM065872NIGMS NIH HHS R01 GM079196NIGMS NIH HHS R01 GM100477NIGMS NIH HHS R01 GM128731NIGMS NIH HHS R35 GM118080NIGMS NIH HHS T32 GM115327
6 · The paper itself

Abstract

The ubiquitin (Ub) and Ub-like (Ubl) protein-conjugation cascade is initiated by E1 enzymes that catalyze Ub/Ubl activation through C-terminal adenylation, thioester bond formation with an E1 catalytic cysteine, and thioester bond transfer to Ub/Ubl E2 conjugating enzymes. Each of these reactions is accompanied by conformational changes of the E1 domain that contains the catalytic cysteine (Cys domain). Open conformations of the Cys domain are associated with adenylation and thioester transfer to E2s, while a closed conformation is associated with pyrophosphate release and thioester bond formation. Several structures are available for Ub E1s, but none has been reported in the open state before pyrophosphate release or in the closed state. Here, we describe the structures of

Indexed as

AdenineAnimalsCatalytic DomainConserved SequenceDiphosphatesDNA Mutational AnalysisEstersProtein ConformationSchizosaccharomycesSchizosaccharomyces pombe ProteinsSulfhydryl CompoundsUbiquitinUbiquitin-Activating EnzymesAdenineDiphosphatesEstersptr3 protein, S pombeSchizosaccharomyces pombe ProteinsSulfhydryl CompoundsUbiquitinUbiquitin-Activating EnzymesadenylationE1thioesterubiquitinX-ray

Identifiers

PMID31235585
PMCPMC6681703

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.