DNA Binding by GATA Transcription Factor Suggests Mechanisms of DNA Looping and Long-Range Gene Regulation

Chen, Yongheng; Bates, D.L.; Dey, Raja; Chen, Po‐Han; Machado, Ana Carolina Dantas; Laird-Offringa, Ite A.; Rohs, Remo; Chen, Lin

doi:10.1016/j.celrep.2012.10.012

Cited by 97 publications

(109 citation statements)

References 55 publications

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“…The N and C fingers in a single GATA1 molecule individually bind to two GATA motifs aligned in a palindromic orientation, indicating that the N finger contributes to the specific bivalent binding of GATA1 to Pal-GATA. In this regard, structural analysis of GATA3 revealed that N finger binds the opposite face of DNA that is bound by C finger and the N finger interacts with the C-terminal basic tail of the C finger inserted into the minor groove (39). This model nicely supports the notion that N finger does not contribute to GATA1 binding to rPal-GATA, in which two GATA motifs are aligned in a reverse palindromic orientation.…”

Section: Discussionsupporting

confidence: 63%

GATA1 Binding Kinetics on Conformation-Specific Binding Sites Elicit Differential Transcriptional Regulation

Hasegawa

Kaneko

Ishihara

et al. 2016

Molecular and Cellular Biology

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e GATA1 organizes erythroid and megakaryocytic differentiation by orchestrating the expression of multiple genes that show diversified expression profiles. Here, we demonstrate that GATA1 monovalently binds to a single GATA motif (Single-GATA) while a monomeric GATA1 and a homodimeric GATA1 bivalently bind to two GATA motifs in palindromic (Pal-GATA) and direct-repeat (Tandem-GATA) arrangements, respectively, and form higher stoichiometric complexes on respective elements. The amino-terminal zinc (N) finger of GATA1 critically contributes to high occupancy of GATA1 on Pal-GATA. GATA1 lacking the N finger-DNA association fails to trigger a rate of target gene expression comparable to that seen with the wild-type GATA1, especially when expressed at low level. This study revealed that Pal-GATA and Tandem-GATA generate transcriptional responses from GATA1 target genes distinct from the response of Single-GATA. Our results support the notion that the distinct alignments in binding motifs are part of a critical regulatory strategy that diversifies and modulates transcriptional regulation by GATA1.

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Section: Discussionsupporting

confidence: 63%

GATA1 Binding Kinetics on Conformation-Specific Binding Sites Elicit Differential Transcriptional Regulation

Hasegawa

Kaneko

Ishihara

et al. 2016

Molecular and Cellular Biology

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“…As these elements are located distant from each other in the comt promoter (30 bp apart), this cooperative binding of the heterodimer would likely involve a DNA loop comprising three helical turns of the DNA (Figure 8). Such a mechanism was classically proposed in the lambda bacteriophage (Hochschild and Ptashne, 1986) and in humans (Chen et al, 2012;Sanyal et al, 2012). In the case of plants, cooperative binding via DNA-looping of heteromeric transcription factors has been demonstrated in the case of MADS box proteins.…”

Section: Discussionmentioning

confidence: 98%

A MYB/ZML Complex Regulates Wound-Induced Lignin Genes in Maize

et al. 2015

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Lignin is an essential polymer in vascular plants that plays key structural roles in vessels and fibers. Lignification is induced by external inputs such as wounding, but the molecular mechanisms that link this stress to lignification remain largely unknown. In this work, we provide evidence that three maize (Zea mays) lignin repressors, MYB11, MYB31, and MYB42, participate in wound-induced lignification by interacting with ZML2, a protein belonging to the TIFY family. We determined that the three R2R3-MYB factors and ZML2 bind in vivo to AC-rich and GAT(A/C) cis-elements, respectively, present in a set of lignin genes. In particular, we show that MYB11 and ZML2 bind simultaneously to the AC-rich and GAT(A/C) cis-elements present in the promoter of the caffeic acid O-methyl transferase (comt) gene. We show that, like the R2R3-MYB factors, ZML2 also acts as a transcriptional repressor. We found that upon wounding and methyl jasmonate treatments, MYB11 and ZML2 proteins are degraded and comt transcription is induced. Based on these results, we propose a molecular regulatory mechanism involving a MYB/ZML complex in which wound-induced lignification can be achieved by the derepression of a set of lignin genes.

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“…However, the zinc finger domains of GATA1-3 are highly conserved, with all mutated residues being identical (Supplemental Figure 5). A homology model of the GATA2 C-terminal zinc finger (Supplemental Figure 5), based on GATA3 bound to DNA (52) indicates that the Emberger R361L and R396Q mutations likely disrupt binding to DNA by mutation of key residues that interact with the major and minor grooves, respectively ( Figure 2D). R362 makes some minor interactions with phosphates on the backbone ure 2A).…”

Section: Gata2 Binds To and Transactivates Prox1 Regulatory Elementsmentioning

confidence: 99%

GATA2 is required for lymphatic vessel valve development and maintenance

Kazenwadel¹,

Betterman²,

Chong³

et al. 2015

J. Clin. Invest.

192

259

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DNA Binding by GATA Transcription Factor Suggests Mechanisms of DNA Looping and Long-Range Gene Regulation

Cited by 97 publications

References 55 publications

GATA1 Binding Kinetics on Conformation-Specific Binding Sites Elicit Differential Transcriptional Regulation

GATA1 Binding Kinetics on Conformation-Specific Binding Sites Elicit Differential Transcriptional Regulation

A MYB/ZML Complex Regulates Wound-Induced Lignin Genes in Maize

GATA2 is required for lymphatic vessel valve development and maintenance

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