PXD009732 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Native mass spectrometry of ClpB |
Description | The ATP-dependent bacterial protein disaggregation machine, ClpB belonging to the AAA+ superfamily, refolds toxic protein aggregates into the native state in cooperation with the cognate Hsp70 partner. The ring-shaped hexamers of ClpB unfold and thread its protein substrate through the central pore. However, their function-related structural dynamics has remained elusive. Here we directly visualize ClpB using high-speed atomic force microscopy (HS-AFM) to gain a mechanistic insight into its disaggregation function. The HS-AFM movies demonstrate massive conformational changes of the hexameric ring during ATP hydrolysis, from a round ring to a spiral and even to a pair of twisted half-spirals. HS-AFM observations of Walker-motif mutants unveil crucial roles of ATP binding and hydrolysis in the oligomer formation and structural dynamics. Furthermore, repressed and hyperactive mutations result in significantly different oligomeric forms. These results provide a comprehensive view for the ATP-driven oligomeric-state transitions that enable ClpB to disentangle protein aggregates |
HostingRepository | PRIDE |
AnnounceDate | 2018-10-18 |
AnnouncementXML | Submission_2018-10-18_03:08:21.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Kentaro Ishii |
SpeciesList | scientific name: Escherichia coli; NCBI TaxID: 562; |
ModificationList | No PTMs are included in the dataset |
Instrument | Synapt MS |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2018-05-09 09:34:18 | ID requested | |
⏵ 1 | 2018-10-18 03:08:23 | announced | |
Publication List
Uchihashi T, Watanabe YH, Nakazaki Y, Yamasaki T, Watanabe H, Maruno T, Ishii K, Uchiyama S, Song C, Murata K, Iino R, Ando T, Dynamic structural states of ClpB involved in its disaggregation function. Nat Commun, 9(1):2147(2018) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: Native mass spectrometry, ClpB |
Contact List
Susumu Uchiyama |
contact affiliation | 5Department of Biotechnology, Graduate School of Engineering, Osaka University |
contact email | suchi@bio.eng.osaka-u.ac.jp |
lab head | |
Kentaro Ishii |
contact affiliation | Okazaki Institute for Integrative Bioscience, National Institutes of Natural Sciences |
contact email | ishii@ims.ac.jp |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD009732
- Label: PRIDE project
- Name: Native mass spectrometry of ClpB