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TitleStructural basis of nucleosome remodeling by Cockayne syndrome B homologue Komagataella phaffii Rad26.
Journal, issue, pagesNat Commun, Vol. 17, Issue 1, Year 2026
Publish dateJun 24, 2026
AuthorsYutaro Fukushima / Chiaki Kinoshita / Lumi Negishi / Tomoya Kujirai / Yuki Kobayashi / Mitsuo Ogasawara / Haruhiko Ehara / Shun-Ichi Sekine / Wataru Kagawa / Hitoshi Kurumizaka / Yoshimasa Takizawa /
PubMed AbstractRad26, a yeast homologue of mammalian Cockayne syndrome protein B (CSB), plays an essential role in transcription-coupled nucleotide excision repair (TC-NER). Rad26/CSB binds RNA polymerase II ...Rad26, a yeast homologue of mammalian Cockayne syndrome protein B (CSB), plays an essential role in transcription-coupled nucleotide excision repair (TC-NER). Rad26/CSB binds RNA polymerase II stalled at DNA lesions and recruits DNA repair factors, functioning as a molecular scaffold. In addition, Rad26/CSB possesses nucleosome-remodeling activity that may help restore transcription after DNA repair. Here we determine the cryo-electron microscopy structure of the Rad26/CSB-nucleosome complex. Rad26/CSB binds near the nucleosomal entry/exit region (superhelical location ±6) through a unique mechanism in which its ATPase domains, Lobe 1 and Lobe 2, engage nucleosomal DNA in a reverse orientation compared with other remodelers such as Snf2 and Ino80. Mutational, biochemical, and crosslinking mass-spectrometric analyses demonstrate the requirement of the KR loop for nucleosome binding and remodeling. Furthermore, we show that N-terminal auto-inhibition involves long-range contacts between the disordered N-terminus and the Lobe 2 region, and is relieved by mutations of Leu8 and Leu11. These findings reveal the structural basis of Rad26/CSB-mediated nucleosome remodeling in TC-NER.
External linksNat Commun / PubMed:42342665 / PubMed Central
MethodsEM (single particle)
Resolution3.5 - 4.1 Å
Structure data

63262

9lox

EMDB-63262, PDB-9lox:
Cryo-EM structure of the chromatin remodeler Rad26 bound to the nucleosome at SHL6
Method: EM (single particle) / Resolution: 3.5 Å

EMDB-63507: Cryo-EM structure of the chromatin remodeler Rad26 N-terminal deletion mutant bound to the nucleosome at SHL6
Method: EM (single particle) / Resolution: 4.1 Å

Source
  • komagataella phaffii (fungus)
  • synthetic construct (others)
KeywordsDNA BINDING PROTEIN / Rad26 / CSB / ERCC6 / Chromatin remodeler / DNA repair / Komagataella phaffii / Komagataella pastoris / Histone H2A / Histone H2B / Histone H3 / Histone H4 / DNA / Epigenetic / Gene regulation / cryo-EM

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