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PXD055009

PXD055009 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleIntrinsically Disordered Regions in Chromodomain Helicase DNA-binding (CHD) Proteins Shape Distinct Protein Interaction Networks
DescriptionMetazoans employ chromodomain helicase DNA-binding (CHD) enzymes to reposition nucleosomal DNA for transcription and replication. The CHD family consists of nine distinct members (CHD1-9) that possess highly conserved chromo and ATPase domains. These domains are flanked by poorly characterised N- and C-termini, which are enriched with intrinsically disordered regions (IDRs) and short aggregation-prone regions (APRs). The contribution of IDRs and APRs to CHD function has remained elusive. In this study we used affinity purification followed by mass spectrometry analysis (AP-MS) to define the protein-protein interaction (PPI) networks within the N- and C-termini of each CHD family member. The results illustrate a comprehensive map of CHD1-9-specific binding proteins that include dozens of novel interactions with transcription regulators and epigenetic factors. Using AlphaFold Multimer we examined the structural predictions of high confidence PPIs from our AP-MS screens and identified APR regions with alpha helical structures that contribute to PPIs. We further investigated a highly conserved APR within the C-terminus of the CHD4 protein and demonstrate that it contributes to the interaction of CHD4 with the nucleosome remodelling and deacetylase (NuRD) and CHD, ADNP, HP1 (ChAHP) complexes. Peptides mimicking this APR effectively disrupt CHD4 binding to both NuRD and ChAHP complexes, consequently triggering the transcriptional activation or repression of hundreds of target genes. Our results emphasise the crucial role that the N- and C-termini of CHD chromatin remodelers play in establishing protein-protein interaction (PPI) networks, which drive unique transcriptional programs.
HostingRepositoryPRIDE
AnnounceDate2025-05-26
AnnouncementXMLSubmission_2025-05-25_16:06:59.099.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmittermehdi Sharifi tabar
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListiodoacetamide derivatized residue
InstrumentQ Exactive HF
Dataset History
RevisionDatetimeStatusChangeLog Entry
02024-08-19 17:32:06ID requested
12025-05-25 16:06:59announced
Publication List
10.1096/fj.202402808rr;
Tabar MS, Parsania C, Giardina C, Feng Y, Wong ACH, Metierre C, Nagarajah R, Dhungel BP, Rasko JEJ, Bailey CG, Intrinsically Disordered Regions Define Unique Protein Interaction Networks in CHD Family Remodelers. FASEB J, 39(10):e70632(2025) [pubmed]
Keyword List
submitter keyword: DNA helicase, chromatin remodelers, transcription, intrinsically disordered regions, aggregation prone regions, protein-protein interactions
Contact List
Charles G Bailey
contact affiliationFaculty of Medicine & Health, The University of Sydney, Camperdown, NSW 2006, Australia.
contact emailc.bailey@centenary.org.au
lab head
mehdi Sharifi tabar
contact affiliationThe centenary institute of cancer medicine
contact emailm.tabar@centenary.org.au
dataset submitter
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