[English] 日本語
Yorodumi Papers
- Database of articles cited by EMDB/PDB/SASBDB data -

+
Search query

Keywords
Structure methods
Author
Journal
IF

-
Structure paper

TitleVisualizing the chaperone-mediated folding trajectory of the G protein β5 β-propeller.
Journal, issue, pagesMol Cell, Vol. 83, Issue 21, Page 3852-33868.e6, Year 2023
Publish dateNov 2, 2023
AuthorsShuxin Wang / Mikaila I Sass / Yujin Kwon / W Grant Ludlam / Theresa M Smith / Ethan J Carter / Nathan E Gladden / Margot Riggi / Janet H Iwasa / Barry M Willardson / Peter S Shen /
PubMed AbstractThe Chaperonin Containing Tailless polypeptide 1 (CCT) complex is an essential protein folding machine with a diverse clientele of substrates, including many proteins with β-propeller domains. Here, ...The Chaperonin Containing Tailless polypeptide 1 (CCT) complex is an essential protein folding machine with a diverse clientele of substrates, including many proteins with β-propeller domains. Here, we determine the structures of human CCT in complex with its accessory co-chaperone, phosducin-like protein 1 (PhLP1), in the process of folding Gβ, a component of Regulator of G protein Signaling (RGS) complexes. Cryoelectron microscopy (cryo-EM) and image processing reveal an ensemble of distinct snapshots that represent the folding trajectory of Gβ from an unfolded molten globule to a fully folded β-propeller. These structures reveal the mechanism by which CCT directs Gβ folding through initiating specific intermolecular contacts that facilitate the sequential folding of individual β sheets until the propeller closes into its native structure. This work directly visualizes chaperone-mediated protein folding and establishes that CCT orchestrates folding by stabilizing intermediates through interactions with surface residues that permit the hydrophobic core to coalesce into its folded state.
External linksMol Cell / PubMed:37852256 / PubMed Central
MethodsEM (single particle)
Resolution2.7 - 3.7 Å
Structure data

EMDB-40439, PDB-8sfe:
Open state CCT-G beta 5 complex
Method: EM (single particle) / Resolution: 3.36 Å

EMDB-40440, PDB-8sff:
CCT G beta 5 complex closed state 0
Method: EM (single particle) / Resolution: 3.2 Å

EMDB-40452, PDB-8sg8:
CCT G beta 5 complex closed state 1
Method: EM (single particle) / Resolution: 3.0 Å

EMDB-40453, PDB-8sg9:
CCT G beta 5 complex closed state 3
Method: EM (single particle) / Resolution: 2.9 Å

EMDB-40454, PDB-8sgc:
CCT G beta 5 complex closed state 2
Method: EM (single particle) / Resolution: 2.9 Å

EMDB-40461, PDB-8sgl:
CCT G beta 5 complex closed state 15
Method: EM (single particle) / Resolution: 2.9 Å

EMDB-40464, PDB-8sgq:
CCT G beta 5 complex intermediate state
Method: EM (single particle) / Resolution: 3.7 Å

EMDB-40481, PDB-8sh9:
CCT G beta 5 complex best PhLP1 class
Method: EM (single particle) / Resolution: 2.7 Å

EMDB-40482, PDB-8sha:
CCT-G beta 5 complex closed state 4
Method: EM (single particle) / Resolution: 3.0 Å

EMDB-40484, PDB-8shd:
CCT G beta 5 complex closed state 10
Method: EM (single particle) / Resolution: 2.9 Å

EMDB-40485, PDB-8she:
CCT-G beta 5 complex closed state 8
Method: EM (single particle) / Resolution: 2.8 Å

EMDB-40486, PDB-8shf:
CCT-G beta 5 complex closed state 7
Method: EM (single particle) / Resolution: 3.0 Å

EMDB-40487, PDB-8shg:
CCT G beta 5 complex closed state 9
Method: EM (single particle) / Resolution: 2.8 Å

EMDB-40488, PDB-8shl:
CCT G beta 5 complex closed state 5
Method: EM (single particle) / Resolution: 3.0 Å

EMDB-40489, PDB-8shn:
CCT-G beta 5 complex closed state 6
Method: EM (single particle) / Resolution: 2.8 Å

EMDB-40490, PDB-8sho:
CCT G beta 5 complex close state 11
Method: EM (single particle) / Resolution: 3.0 Å

EMDB-40491, PDB-8shp:
CCT G beta 5 complex closed state 13
Method: EM (single particle) / Resolution: 3.0 Å

EMDB-40492, PDB-8shq:
CCT G beta 5 complex closed state 12
Method: EM (single particle) / Resolution: 2.9 Å

EMDB-40494, PDB-8sht:
CCT G beta 5 complex closed state 14
Method: EM (single particle) / Resolution: 3.0 Å

Chemicals

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

ChemComp-MG:
Unknown entry

ChemComp-AF3:
ALUMINUM FLUORIDE / Aluminium fluoride

ChemComp-HOH:
WATER / Water

Source
  • homo sapiens (human)
KeywordsCHAPERONE / CCT / Gb5 / complex / open

+
About Yorodumi 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

-
Aug 12, 2020. Covid-19 info

Covid-19 info

URL: https://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

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

EMDB accession codes are about to change! (news from PDBe EMDB page)

  • The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force.
  • The EM Navigator/Yorodumi systems omit the EMD- prefix.

Related info.:Q: What is EMD? / ID/Accession-code notation in Yorodumi/EM Navigator

External links:EMDB Accession Codes are Changing Soon! / Contact to PDBj

+
Jul 12, 2017. Major update of PDB

Major update of PDB

  • wwPDB released updated PDB data conforming to the new PDBx/mmCIF dictionary.
  • This is a major update changing the version number from 4 to 5, and with Remediation, in which all the entries are updated.
  • In this update, many items about electron microscopy experimental information are reorganized (e.g. em_software).
  • Now, EM Navigator and Yorodumi are based on the updated data.

External links:wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

-
Yorodumi Papers

Database of articles cited by EMDB/PDB/SASBDB data

  • Database of articles cited by EMDB, PDB, and SASBDB entries
  • Using PubMed data

Related info.:EMDB / PDB / SASBDB / Yorodumi / EMN Papers / Changes in new EM Navigator and Yorodumi

Read more