Structural basis for the conformational integrity of the Arabidopsis thaliana HY5 leucine zipper homodimer.
The leucine zipper (LZ) domain of the HY5 transcription factor from Arabidopsis thaliana has unique primary structural properties, including major occupation by the Leu residues as well as two buried polar residues in the a positions and a localized distribution of charged and polar residues in the first three heptad repeats. In this study, we solved the crystal structure of the HY5 LZ domain and show that the peculiarities in the primary sequence yield unusual structural characteristics. For example, the HY5 LZ domain exhibits a bipartite charge distribution characterized by a highly negative electrostatic surface potential in its N-terminal half and a nearly neutral potential in its C-terminal half. The LZ N-terminal region also contains two consecutive putative trigger sites for dimerization of the coiled coils. In addition, two buried asparagines at a positions 19 and 33 in the HY5 LZ domain display distinct modes of polar interaction. Whereas Asn(19) shows a conformational flip-flop, Asn(33) is engaged in a permanent hydrogen bond network. CD spectropolarimetry and analytical ultracentrifugation experiments performed with versions of the HY5 LZ domain containing mutations in the a positions yielded further evidence that position a amino acid residues are crucial for achieving an oligomeric state and maintaining stability. However, a low correlation between position a amino acid preference, core packing geometry, and rotamer conformations suggests that the oligomeric state of the LZ domain is not governed entirely by known structural properties. Taken together, our results suggest structural factors conferring conformational integrity of the HY5 LZ homodimer that are more complicated than proposed previously.
Yoon
Mi-Kyung
MK
Department of Chemistry, Korea Advanced Institute of Science and Technology, Daejon, Republic of Korea.
Kim
Ho-Min
HM
Choi
Giltsu
G
Lee
Jie-Oh
JO
Choi
Byong-Seok
BS
D017360:Arabidopsis / Q000737:chemistry*; D029681:Arabidopsis Proteins / Q000737:chemistry*; D050976:Basic-Leucine Zipper Transcription Factors / Q000737:chemistry*; D019281:Dimerization; D016350:Leucine Zippers; D008958:Models, Molecular; D009687:Nuclear Proteins / Q000737:chemistry*; D020836:Protein Structure, Quaternary; D017434:Protein Structure, Tertiary
D029681:Arabidopsis Proteins; D050976:Basic-Leucine Zipper Transcription Factors; C109254:HY5 protein, Arabidopsis; D009687:Nuclear Proteins