The DNA binding and catalytic domains of poly(ADP-ribose) polymerase 1 cooperate in the regulation of chromatin structure and transcription

David A. Wacker, Donald D. Ruhl, Ehsan H. Balagamwala, Kristine M. Hope, Tong Zhang, W. Lee Kraus

Research output: Contribution to journalArticle

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Abstract

We explored the mechanisms of chromatin compaction and transcriptional regulation by poly(ADP-ribose) polymerase 1 (PARP-1), a nucleosome-binding protein with an NAD+-dependent enzymatic activity. By using atomic force microscopy and a complementary set of biochemical assays with reconstituted chromatin, we showed that PARP-1 promotes the localized compaction of chromatin into supranucleosomal structures in a manner independent of the amino-terminal tails of core histones. In addition, we defined the domains of PARP-1 required for nucleosome binding, chromatin compaction, and transcriptional repression. Our results indicate that the DNA binding domain (DBD) of PARP-1 is necessary and sufficient for binding to nucleosomes, yet the DBD alone is unable to promote chromatin compaction and only partially represses RNA polymerase II-dependent transcription in an in vitro assay with chromatin templates (∼50% of the repression observed with wild-type PARP-1). Furthermore, our results show that the catalytic domain of PARP-1, which does not bind nucleosomes on its own, cooperates with the DBD to promote chromatin compaction and efficient transcriptional repression in a manner independent of its enzymatic activity. Collectively, our results have revealed a novel function for the catalytic domain in chromatin compaction. In addition, they show that the DBD and catalytic domain cooperate to regulate chromatin structure and chromatin-dependent transcription, providing mechanistic insights into how these domains contribute to the chromatin-dependent functions of PARP-1.

Original languageEnglish (US)
Pages (from-to)7475-7485
Number of pages11
JournalMolecular and Cellular Biology
Volume27
Issue number21
DOIs
StatePublished - Nov 2007

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Chromatin
Catalytic Domain
DNA
Nucleosomes
Poly (ADP-Ribose) Polymerase-1
RNA Polymerase II
Atomic Force Microscopy
NAD
Histones
Carrier Proteins

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics
  • Cell Biology

Cite this

The DNA binding and catalytic domains of poly(ADP-ribose) polymerase 1 cooperate in the regulation of chromatin structure and transcription. / Wacker, David A.; Ruhl, Donald D.; Balagamwala, Ehsan H.; Hope, Kristine M.; Zhang, Tong; Kraus, W. Lee.

In: Molecular and Cellular Biology, Vol. 27, No. 21, 11.2007, p. 7475-7485.

Research output: Contribution to journalArticle

Wacker, David A. ; Ruhl, Donald D. ; Balagamwala, Ehsan H. ; Hope, Kristine M. ; Zhang, Tong ; Kraus, W. Lee. / The DNA binding and catalytic domains of poly(ADP-ribose) polymerase 1 cooperate in the regulation of chromatin structure and transcription. In: Molecular and Cellular Biology. 2007 ; Vol. 27, No. 21. pp. 7475-7485.
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