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TitleStructure of the ISW1a complex bound to the dinucleosome.
Journal, issue, pagesNat Struct Mol Biol, Vol. 31, Issue 2, Page 266-274, Year 2024
Publish dateJan 4, 2024
AuthorsLifei Li / Kangjing Chen / Youyang Sia / Pengjing Hu / Youpi Ye / Zhucheng Chen /
PubMed AbstractNucleosomes 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 ...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.
External linksNat Struct Mol Biol / PubMed:38177688
MethodsEM (single particle)
Resolution3.09 - 5.4 Å
Structure data

32992

7x3t

EMDB-32992, PDB-7x3t:
Cryo-EM structure of ISW1a-dinucleosome
Method: EM (single particle) / Resolution: 5.4 Å

32994

7x3v

EMDB-32994, PDB-7x3v:
Cryo-EM structure of IOC3-N2 nucleosome
Method: EM (single particle) / Resolution: 3.09 Å

32995

7x3w

EMDB-32995, PDB-7x3w:
Cryo-EM structure of ISW1-N1 nucleosome
Method: EM (single particle) / Resolution: 3.1 Å

32996

7x3x

EMDB-32996, PDB-7x3x:
Cryo-EM structure of N1 nucleosome-RA
Method: EM (single particle) / Resolution: 3.2 Å

Chemicals

ChemComp-ADP:
ADENOSINE-5'-DIPHOSPHATE / ADP, energy-carrying molecule*YM / Adenosine diphosphate

ChemComp-BEF:
BERYLLIUM TRIFLUORIDE ION

ChemComp-MG:
Unknown entry

Source
  • Saccharomyces cerevisiae (brewer's yeast)
  • xenopus laevis (African clawed frog)
  • saccharomyces cerevisiae s288c (yeast)
  • synthetic construct (others)
KeywordsPROTEIN BINDING / Ioc3 binding / PROTEIN BINDING/DNA / PROTEIN BINDING-DNA COMPLEX

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