8J0R image
Entry Detail
PDB ID:
8J0R
Title:
Structure of human TFAP2A in complex with DNA
Biological Source:
Host Organism:
PDB Version:
Deposition Date:
2023-04-11
Release Date:
2023-07-05
Method Details:
Experimental Method:
Resolution:
2.10 Å
R-Value Free:
0.19
R-Value Work:
0.16
R-Value Observed:
0.16
Space Group:
P 32 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Transcription factor AP-2-alpha
Chain IDs:A, B
Chain Length:219
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polydeoxyribonucleotide
Description:DNA (5'-D(*CP*TP*GP*CP*CP*TP*CP*AP*GP*GP*CP*AP*C)-3')
Chain IDs:C
Chain Length:13
Number of Molecules:1
Biological Source:synthetic construct
Polymer Type:polydeoxyribonucleotide
Description:DNA (5'-D(*GP*TP*GP*CP*CP*TP*GP*AP*GP*GP*CP*AP*G)-3')
Chain IDs:D
Chain Length:13
Number of Molecules:1
Biological Source:synthetic construct
Primary Citation
Structural basis for specific DNA sequence motif recognition by the TFAP2 transcription factors.
Nucleic Acids Res. 51 8270 8282 (2023)
PMID: 37409559 DOI: 10.1093/nar/gkad583

Abstact

The TFAP2 family regulates gene expression during differentiation, development, and organogenesis, and includes five homologs in humans. They all possess a highly conserved DNA binding domain (DBD) followed by a helix-span-helix (HSH) domain. The DBD-HSH tandem domain specifically binds to a GCC(N3)GGC consensus sequence, but the precise recognition mechanisms remain unclear. Here, we found that TFAP2 preferred binding to the GCC(N3)GGC sequence, and the pseudo-palindromic GCC and GGC motifs and the length of the central spacer between the two motifs determined their binding specificity. Structural studies revealed that the two flat amphipathic α-helical HSH domains of TFAP2A stacked with each other to form a dimer via hydrophobic interactions, while the stabilized loops from both DBD domains inserted into two neighboring major grooves of the DNA duplex to form base-specific interactions. This specific DNA binding mechanism controlled the length of the central spacer and determined the DNA sequence specificity of TFAP2. Mutations of the TFAP2 proteins are implicated in various diseases. We illustrated that reduction or disruption of the DNA binding ability of the TFAP2 proteins is the primary cause of TFAP2 mutation-associated diseases. Thus, our findings also offer valuable insights into the pathogenesis of disease-associated mutations in TFAP2 proteins.

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Primary Citation of related structures