SNAP output for PDB entry 2y9z [SNAP web server]

PDB-id

2y9z; SNAP-derived features in text and JSON formats; DNAproDB

Class

transcription

Method

X-ray (3.601 Å)

Summary

Chromatin remodeling factor isw1a(del_atpase) in DNA complex

Reference

Yamada K, Frouws TD, Angst B, Fitzgerald DJ, Deluca C, Schimmele K, Sargent DF, Richmond TJ (2011): "Structure and Mechanism of the Chromatin Remodelling Factor Isw1A." Nature, 472, 448. doi: 10.1038/NATURE09947.

Abstract

Site-specific recognition of DNA in eukaryotic organisms depends on the arrangement of nucleosomes in chromatin. In the yeast Saccharomyces cerevisiae, ISW1a and related chromatin remodelling factors are implicated in establishing the nucleosome repeat during replication and altering nucleosome position to affect gene activity. Here we have solved the crystal structures of S. cerevisiae ISW1a lacking its ATPase domain both alone and with DNA bound at resolutions of 3.25 Å and 3.60 Å, respectively, and we have visualized two different nucleosome-containing remodelling complexes using cryo-electron microscopy. The composite X-ray and electron microscopy structures combined with site-directed photocrosslinking analyses of these complexes suggest that ISW1a uses a dinucleosome substrate for chromatin remodelling. Results from a remodelling assay corroborate the dinucleosome model. We show how a chromatin remodelling factor could set the spacing between two adjacent nucleosomes acting as a 'protein ruler'.