Reference: Li L, et al. (2024) Structure of the ISW1a complex bound to the dinucleosome. Nat Struct Mol Biol 31(2):266-274

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Abstract


Nucleosomes are basic repeating units of chromatin and form regularly spaced arrays in cells. Chromatin remodelers alter the positions of nucleosomes and are vital in regulating chromatin organization and gene expression. Here we report the cryo-EM structure of chromatin remodeler ISW1a complex from Saccharomyces cerevisiae bound to the dinucleosome. Each subunit of the complex recognizes a different nucleosome. The motor subunit binds to the mobile nucleosome and recognizes the acidic patch through two arginine residues, while the DNA-binding module interacts with the entry DNA at the nucleosome edge. This nucleosome-binding mode provides the structural basis for linker DNA sensing of the motor. Notably, the Ioc3 subunit recognizes the disk face of the adjacent nucleosome through interacting with the H4 tail, the acidic patch and the nucleosomal DNA, which plays a role in the spacing activity in vitro and in nucleosome organization and cell fitness in vivo. Together, these findings support the nucleosome spacing activity of ISW1a and add a new mode of nucleosome remodeling in the context of a chromatin environment.

Reference Type
Journal Article
Authors
Li L, Chen K, Sia Y, Hu P, Ye Y, Chen Z
Primary Lit For
ISW1 | IOC3 | ISW1a chromatin remodeling complex
Additional Lit For
Ioc3-H4 | Ioc3-DNA | Ioc3-AP

Phenotype Annotations 2 entries for 1 gene


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GenePhenotypeExperiment TypeMutant InformationStrain BackgroundChemicalDetails
IOC3resistance to chemicals: decreased
classical genetics unspecified
Allele: Ioc3-H4

Q251K, D252K; interactions with the histone H4 tail are disrupted

S288C0.02% methyl methanesulfonateTemperature: elevated temperature, 37 °C
Details: slow growth relative to wt in the presence of MMS at 37 °C
IOC3resistance to chemicals: decreased
classical genetics unspecified
Allele: Ioc3-AP

R739E, R742E; interactions with the H2A-H2B acidic patch is disrupted

S288C0.02% methyl methanesulfonateTemperature: elevated temperature, 37 °C
Details: slow growth relative to wt in the presence of MMS at 37 °C
Showing 1 to 2 of 2 entries

Interaction Annotations


Genetic Interactions

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Interactor Interactor Allele Assay Annotation Action Phenotype SGA score P-value Source Reference

Physical Interactions 1 entry for 2 genes

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InteractorInteractorAssayAnnotationActionModification
ISW1IOC3Reconstituted Complexmanually curatedBait-HitNo Modification
Showing 1 to 1 of 1 entries