Download MendeleyMulticomplex Integrative Structural Modeling of a Human Histone Deacetylase Interactome
Nde, J., Majila, K., Zimmermann, R.C., Kempf, C., Zang, Y., Cesare, J., Thornton, J.L., Workman, J.L., Florens, L., Viswanath, S., Washburn, M.P.(2026) Mol Cell Proteomics
- PubMed: 42680104 Search on PubMed
- DOI: https://doi.org/10.1016/j.mcpro.2026.101651
- Primary Citation Related Structures:
9A8O, 9A8P, 9A8Q, 9AAX - PubMed Abstract:
Histone Deacetylase (HDAC) 1 and 2 are key enzymatic components in multiple large chromatin remodeling complexes including NuRD, SIN3, and CoREST. In addition, both HDAC 1 and 2 contain a large intrinsically disordered region (IDR) within their C-terminal domain (CTD). How HDAC1/2 assemble into these complexes and the structure of the CTD IDR remains poorly understood. Here, we used HDAC1/2 to isolate their protein interaction networks from cells and used crosslinking mass spectrometry (XL-MS) coupled with the Integrative Modeling Platform to build structural models of the NuRD, SIN3A, and CoREST complexes. Next, we implemented an AlphaFold-enabled XL-MS constrained modeling approach to investigate how HDAC1 could assemble into these complexes. We show that the CTD IDR of HDAC1 folds into alpha helices in these complexes. Finally, we built a complete integrative structural model of a NuRD subcomplex including the abundant HDAC1:MBD3:MTA1:GATAD2B:RBBP4 subunits, which included 6 IDRs. The approaches used herein are broadly applicable for the study of protein complexes and protein interaction networks that can provide important insights into IDRs.
- Department of Cancer Biology, University of Kansas Medical Center, Kansas City, KS, USA.
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