PXD025287 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Nucleosome recognition and DNA distortion by the Chd1 remodeler revealed at 2.6 Å resolution |
Description | Chromatin remodelers are ATP-dependent enzymes that reorganize nucleosomes within all eukaryotic genomes. The Chd1 remodeler specializes in shifting nucleosomes into evenly spaced arrays, a defining characteristic of chromatin in gene bodies that blocks spurious transcription initiation. Linked to some forms of autism and commonly mutated in prostate cancer, Chd1 is essential for maintaining pluripotency in stem cells. Here we report a complex of yeast Chd1 bound to a nucleosome in a nucleotide-free state, determined by cryo-electron microscopy (cryo-EM) to 2.6 Å resolution. The structure shows a bulge of the DNA tracking strand where the ATPase motor engages the nucleosome, consistent with an initial stage in DNA translocation. Unlike other remodeler-nucleosome complexes, nucleosomal DNA compensates for the remodeler-induced bulge with a bulge of the complementary DNA strand one helical turn downstream from the ATPase motor. Unexpectedly, the structure also reveals an N-terminal binding motif, called ChEx, which binds on the exit-side acidic patch of the nucleosome. The ChEx motif can displace a LANA-based peptide from the acidic patch, which suggests a means by which Chd1 remodelers may block competing chromatin remodelers from acting on the opposite side of the nucleosome. |
HostingRepository | PRIDE |
AnnounceDate | 2022-02-23 |
AnnouncementXML | Submission_2022-02-23_12:19:55.155.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Stephen Fried |
SpeciesList | scientific name: Xenopus laevis (African clawed frog); NCBI TaxID: 8355; scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932; |
ModificationList | monohydroxylated residue; iodoacetamide derivatized residue |
Instrument | Q Exactive HF-X |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2021-04-08 19:47:07 | ID requested | |
⏵ 1 | 2022-02-23 12:19:55 | announced | |
2 | 2023-11-14 08:52:54 | announced | 2023-11-14: Updated project metadata. |
Publication List
Keyword List
submitter keyword: Nucleosome, Chd1, XL-MS, chromatin remodeler |
Contact List
Stephen Fried |
contact affiliation | Stephen Fried Johns Hopkins University Fried Lab Chemistry Department |
contact email | sdfried@jhu.edu |
lab head | |
Stephen Fried |
contact affiliation | Johns Hopkins University |
contact email | sdfried@jhu.edu |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD025287
- Label: PRIDE project
- Name: Nucleosome recognition and DNA distortion by the Chd1 remodeler revealed at 2.6 Å resolution