Evidence map›Paper›PMID 35986001›Full record

ArticleNature communications2022

Crystal structures reveal catalytic and regulatory mechanisms of the dual-specificity ubiquitin/FAT10 E1 enzyme Uba6.

Lingmin Yuan, Fei Gao, Zongyang Lv, Digant Nayak, Anindita Nayak, Priscila Dos Santos Bury, Kristin E Cano, Lijia Jia, Natalia Oleinik, Firdevs Cansu Atilgan and 6 more

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing papers in PubMed
1.4field-weighted citation impact, top 19% 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

15 citing papers in PubMed, 17 citations in OpenAlex.

  1. Article
  2. Article
  3. The emerging importance of UBA6 in ubiquitylation and proteostasis.Nature reviews. Molecular cell biology · 2026
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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

16 authors at 5 institutions in 2 countries.

Lingmin Yuan *Department of Biochemistry & Structural Biology, University of Texas Health Science Center at San Antonio, San Antonio, TX, 78229, USA.
Fei Gao *Department of Biochemistry & Structural Biology, University of Texas Health Science Center at San Antonio, San Antonio, TX, 78229, USA.
Zongyang LvDepartment of Biochemistry & Structural Biology, University of Texas Health Science Center at San Antonio, San Antonio, TX, 78229, USA.
Digant NayakDepartment of Biochemistry & Structural Biology, University of Texas Health Science Center at San Antonio, San Antonio, TX, 78229, USA.ORCID http://orcid.org/0000-0003-3680-0846
Anindita NayakDepartment of Biochemistry & Structural Biology, University of Texas Health Science Center at San Antonio, San Antonio, TX, 78229, USA.ORCID http://orcid.org/0000-0001-8735-4132
Priscila Dos Santos BuryDepartment of Biochemistry & Structural Biology, University of Texas Health Science Center at San Antonio, San Antonio, TX, 78229, USA.
Kristin E CanoDepartment of Biochemistry & Structural Biology, University of Texas Health Science Center at San Antonio, San Antonio, TX, 78229, USA.
Lijia JiaDepartment of Biochemistry & Structural Biology, University of Texas Health Science Center at San Antonio, San Antonio, TX, 78229, USA.
Natalia OleinikDepartment of Biochemistry & Molecular Biology and Hollings Cancer Center, Medical University of South Carolina, Charleston, SC, 29425, USA.
Firdevs Cansu AtilganDepartment of Biochemistry & Molecular Biology and Hollings Cancer Center, Medical University of South Carolina, Charleston, SC, 29425, USA.ORCID http://orcid.org/0000-0001-9055-9497
Besim OgretmenDepartment of Biochemistry & Molecular Biology and Hollings Cancer Center, Medical University of South Carolina, Charleston, SC, 29425, USA.ORCID http://orcid.org/0000-0002-1019-5660
Katelyn M WilliamsDepartment of Pediatrics, Johns Hopkins University School of Medicine, Baltimore, MD, 21287, USA.
Christopher DaviesDepartment of Biochemistry & Molecular Biology, University of South Alabama, Mobile, AL, 36688, USA.
Farid El OualidUbiQ Bio B.V., Science Park 408, 1098 XH, Amsterdam, The Netherlands.ORCID http://orcid.org/0000-0002-4447-9960
Elizabeth V WasmuthDepartment of Biochemistry & Structural Biology, University of Texas Health Science Center at San Antonio, San Antonio, TX, 78229, USA.
Shaun K OlsenDepartment of Biochemistry & Structural Biology, University of Texas Health Science Center at San Antonio, San Antonio, TX, 78229, USA. olsens@uthscsa.edu.ORCID http://orcid.org/0000-0002-1265-7101
The University of Texas Health Science Center at San Antonio · USMedical University of South Carolina · USJohns Hopkins University · USMemorial Sloan Kettering Cancer Center · USUniversity of South Alabama · US

Funding

X-RAY CRYSTALLOGRAPHYP30CA008748 · NCI · SLOAN-KETTERING INSTITUTE FOR CANCER RES · PI Hongbiao Carl Lekaye · 1985 to 2026
$347.4M
TISSUE CULTURE---COREP30CA054174 · NCI · UNIVERSITY OF TEXAS HLTH SCIENCE CENTER · PI Robin Jean Leach · 1991 to 2026
$59.1M
User Training and OutreachP30GM124165 · NIGMS · CORNELL UNIVERSITY · PI Nozomi Ando, J Christopher Fromme · 2018 to 2026
$34.2M
Structural Biology of the Ubiquitin Conjugation SystemR01GM115568 · NIGMS · UNIVERSITY OF TEXAS HLTH SCIENCE CENTER · PI OLSEN, SHAUN · 2015 to 2023
$2.7M
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
Pixel Array Detector for Macromolecular CrystallographyS10OD021527 · OD · CORNELL UNIVERSITY · PI EALICK, STEVEN E · 2016 to 2016
$2.0M
Upgrade of a Core Laboratory Macromolecular X-ray Diffraction SystemS10OD030374 · OD · UNIVERSITY OF TEXAS HLTH SCIENCE CENTER · PI TAYLOR, ALEXANDER B · 2021 to 2021
$439k
NCI NIH HHS P30 CA008748NCI NIH HHS P30 CA054174NIGMS NIH HHS P30 GM124165NIGMS NIH HHS R01 GM115568NIGMS NIH HHS R01 GM128731NIH HHS S10 OD021527NIH HHS S10 OD030374
6 · The paper itself

Abstract

The E1 enzyme Uba6 initiates signal transduction by activating ubiquitin and the ubiquitin-like protein FAT10 in a two-step process involving sequential catalysis of adenylation and thioester bond formation. To gain mechanistic insights into these processes, we determined the crystal structure of a human Uba6/ubiquitin complex. Two distinct architectures of the complex are observed: one in which Uba6 adopts an open conformation with the active site configured for catalysis of adenylation, and a second drastically different closed conformation in which the adenylation active site is disassembled and reconfigured for catalysis of thioester bond formation. Surprisingly, an inositol hexakisphosphate (InsP6) molecule binds to a previously unidentified allosteric site on Uba6. Our structural, biochemical, and biophysical data indicate that InsP6 allosterically inhibits Uba6 activity by altering interconversion of the open and closed conformations of Uba6 while also enhancing its stability. In addition to revealing the molecular mechanisms of catalysis by Uba6 and allosteric regulation of its activities, our structures provide a framework for developing Uba6-specific inhibitors and raise the possibility of allosteric regulation of other E1s by naturally occurring cellular metabolites.

Indexed as

UbiquitinUbiquitin-Activating EnzymesCatalysisCatalytic DomainHumansUbiquitinsUBA6 protein, humanUbiquitinUbiquitin-Activating EnzymesUbiquitins

Identifiers

PMID35986001
PMCPMC9391358
OpenAlexW4292296576

What OpenQuestion holds

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LicenceCC BY
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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.