[English] 日本語
EMN Papers
- Database of articles cited by 3DEM data entries -

+
Search query

Keywords
Author
Journal
IF

-
Structure paper

TitleUSP14-regulated allostery of the human proteasome by time-resolved cryo-EM.
Journal, issue, pagesNature, Vol. 605, Issue 7910, Page 567-574, Year 2022
Publish dateApr 27, 2022
AuthorsShuwen Zhang / Shitao Zou / Deyao Yin / Lihong Zhao / Daniel Finley / Zhaolong Wu / Youdong Mao /
PubMed AbstractProteasomal degradation of ubiquitylated proteins is tightly regulated at multiple levels. A primary regulatory checkpoint is the removal of ubiquitin chains from substrates by the deubiquitylating ...Proteasomal degradation of ubiquitylated proteins is tightly regulated at multiple levels. A primary regulatory checkpoint is the removal of ubiquitin chains from substrates by the deubiquitylating enzyme ubiquitin-specific protease 14 (USP14), which reversibly binds the proteasome and confers the ability to edit and reject substrates. How USP14 is activated and regulates proteasome function remain unknown. Here we present high-resolution cryo-electron microscopy structures of human USP14 in complex with the 26S proteasome in 13 distinct conformational states captured during degradation of polyubiquitylated proteins. Time-resolved cryo-electron microscopy analysis of the conformational continuum revealed two parallel pathways of proteasome state transitions induced by USP14, and captured transient conversion of substrate-engaged intermediates into substrate-inhibited intermediates. On the substrate-engaged pathway, ubiquitin-dependent activation of USP14 allosterically reprograms the conformational landscape of the AAA-ATPase motor and stimulates opening of the core particle gate, enabling observation of a near-complete cycle of asymmetric ATP hydrolysis around the ATPase ring during processive substrate unfolding. Dynamic USP14-ATPase interactions decouple the ATPase activity from RPN11-catalysed deubiquitylation and kinetically introduce three regulatory checkpoints on the proteasome, at the steps of ubiquitin recognition, substrate translocation initiation and ubiquitin chain recycling. These findings provide insights into the complete functional cycle of the USP14-regulated proteasome and establish mechanistic foundations for the discovery of USP14-targeted therapies.
External linksNature / PubMed:35477760 / PubMed Central
MethodsEM (single particle)
Resolution3.0 - 3.6 Å
Structure data

EMDB-32272, PDB-7w37:
Structure of USP14-bound human 26S proteasome in state EA1_UBL
Method: EM (single particle) / Resolution: 3.0 Å

EMDB-32273, PDB-7w38:
Structure of USP14-bound human 26S proteasome in state EA2.0_UBL
Method: EM (single particle) / Resolution: 3.1 Å

EMDB-32274, PDB-7w39:
Structure of USP14-bound human 26S proteasome in state EA2.1_UBL
Method: EM (single particle) / Resolution: 3.2 Å

EMDB-32275, PDB-7w3a:
Structure of USP14-bound human 26S proteasome in substrate-engaged state ED4_USP14
Method: EM (single particle) / Resolution: 3.5 Å

EMDB-32276, PDB-7w3b:
Structure of USP14-bound human 26S proteasome in substrate-engaged state ED5_USP14
Method: EM (single particle) / Resolution: 3.6 Å

EMDB-32277, PDB-7w3c:
Structure of USP14-bound human 26S proteasome in substrate-engaged state ED0_USP14
Method: EM (single particle) / Resolution: 3.4 Å

EMDB-32278, PDB-7w3f:
Structure of USP14-bound human 26S proteasome in substrate-engaged state ED1_USP14
Method: EM (single particle) / Resolution: 3.3 Å

EMDB-32279, PDB-7w3g:
Structure of USP14-bound human 26S proteasome in substrate-engaged state ED2.0_USP14
Method: EM (single particle) / Resolution: 3.2 Å

EMDB-32280, PDB-7w3h:
Structure of USP14-bound human 26S proteasome in substrate-engaged state ED2.1_USP14
Method: EM (single particle) / Resolution: 3.2 Å

EMDB-32281, PDB-7w3i:
Structure of USP14-bound human 26S proteasome in substrate-inhibited state SB_USP14
Method: EM (single particle) / Resolution: 3.5 Å

EMDB-32282, PDB-7w3j:
Structure of USP14-bound human 26S proteasome in substrate-inhibited state SC_USP14
Method: EM (single particle) / Resolution: 3.5 Å

EMDB-32283, PDB-7w3k:
Structure of USP14-bound human 26S proteasome in substrate-inhibited state SD4_USP14
Method: EM (single particle) / Resolution: 3.6 Å

EMDB-32284, PDB-7w3m:
Structure of USP14-bound human 26S proteasome in substrate-inhibited state SD5_USP14
Method: EM (single particle) / Resolution: 3.5 Å

EMDB-32285: Structure of USP14-bound human 26S proteasome in state EA1_UBL with the local RPN1 density improved
Method: EM (single particle) / Resolution: 3.3 Å

EMDB-32286: Structure of USP14-bound human 26S proteasome in state EA2.0_UBL with the local RPN1 density improved
Method: EM (single particle) / Resolution: 3.3 Å

EMDB-32287: Structure of USP14-bound human 26S proteasome in state EA2.1_UBL with the local RPN1 density improved
Method: EM (single particle) / Resolution: 3.3 Å

EMDB-32288: Structure of USP14-bound human 26S proteasome in substrate-engaged state ED4_USP14 with the USP14 density improved
Method: EM (single particle) / Resolution: 3.5 Å

EMDB-32289: Structure of USP14-bound human 26S proteasome in substrate-engaged state ED0_USP14 with the RPN1 density improved
Method: EM (single particle) / Resolution: 3.5 Å

EMDB-32290: Structure of USP14-bound human 26S proteasome in substrate-engaged state ED2.0_USP14 with the RPN1 density improved
Method: EM (single particle) / Resolution: 3.4 Å

EMDB-32291: Structure of USP14-bound human 26S proteasome in substrate-engaged state ED2.1_USP14 with the USP14 density improved
Method: EM (single particle) / Resolution: 3.3 Å

EMDB-32292: Structure of USP14-bound human 26S proteasome in substrate-inhibited state SC_USP14 with the USP14 density improved
Method: EM (single particle) / Resolution: 3.6 Å

Chemicals

ChemComp-ATP:
ADENOSINE-5'-TRIPHOSPHATE / ATP, energy-carrying molecule*YM

ChemComp-MG:
Unknown entry

ChemComp-ADP:
ADENOSINE-5'-DIPHOSPHATE / ADP, energy-carrying molecule*YM

ChemComp-ZN:
Unknown entry

Source
  • homo sapiens (human)
  • saccharomyces cerevisiae (brewer's yeast)
KeywordsHYDROLASE / Proteasome / AAA-ATPase / Deubiquitinase / USP14

+
About EMN Papers

-
News

-
Feb 9, 2022. New format data for meta-information of EMDB entries

New format data for meta-information of EMDB entries

  • Version 3 of the EMDB header file is now the official format.
  • The previous official version 1.9 will be removed from the archive.

Related info.:EMDB header

External links:wwPDB to switch to version 3 of the EMDB data model

-
Oct 5, 2021. Nobel Prize for mechanically activated and temperature-gated ion channels

Nobel Prize for mechanically activated and temperature-gated ion channels

  • The Nobel Prize in Physiology or Medicine 2021 was awarded jointly to David Julius and Ardem Patapoutian "for their discoveries of receptors for temperature and touch."
  • EM Navigator can help to find cryo-EM structure data by both pioneers.

External links:The Nobel Prize in Physiology or Medicine 2021 - NobelPrize.org / Structure data by Ardem Patapoutian / Structure data by David Julius

+
Aug 12, 2020. Covid-19 info

Covid-19 info

URL: https://pdbjlvh1.pdbj.org/emnavi/covid19.php

New page: Covid-19 featured information page in EM Navigator.

Related info.:Covid-19 info / Mar 5, 2020. Novel coronavirus structure data

+
Mar 5, 2020. Novel coronavirus structure data

Novel coronavirus structure data

Related info.:Yorodumi Speices / Aug 12, 2020. Covid-19 info

External links:COVID-19 featured content - PDBj / Molecule of the Month (242):Coronavirus Proteases

+
Jul 5, 2019. Downlodablable text data

Downlodablable text data

Some data of EM Navigator services can be downloaded as text file. Software such as Excel can load the data files.

PageDataFormat
EMN Searchsearch resultCSV, TSV, or JSON
EMN statisticsdata tableCSV or TSV

Related info.:EMN Search / EMN Statistics

-
EMN Papers

Database of articles cited by 3DEM data entries

  • Database of articles cited by 3DEM data entries in EMDB and PDB
  • Using PubMed data

Related info.:EMDB / PDB / Q: What are the data sources of EM Navigator? / EM Navigator / Yorodumi Papers / Changes in new EM Navigator and Yorodumi

Read more