3WA9

The nucleosome containing human H2A.Z.1

Summary for 3WA9

• Entry DOI: 10.2210/pdb3wa9/pdb
• Related: 3WAA
• Descriptor: Histone H3.1, Histone H4, Histone H2A.Z, ... (5 entities in total)
• Functional Keywords: histone fold, dna binding, nucleus, chromatin formation, structural protein-dna complex, structural protein/dna
• Biological source: Homo sapiens (human); More
• Cellular location: Nucleus: P68431 P62805 P0C0S5 P06899
• Total number of polymer chains: 10
• Total formula weight: 201063.18

Authors

Horikoshi, N.,Sato, K.,Shimada, K.,Arimura, Y.,Osakabe, A.,Tachiwana, H.,Iwasaki, W.,Kagawa, W.,Harata, M.,Kimura, H.,Kurumizaka, H. (deposition date: 2013-04-30, release date: 2013-12-18, Last modification date: 2023-11-08)

Primary citation

Horikoshi, N.,Sato, K.,Shimada, K.,Arimura, Y.,Osakabe, A.,Tachiwana, H.,Hayashi-Takanaka, Y.,Iwasaki, W.,Kagawa, W.,Harata, M.,Kimura, H.,Kurumizaka, H.
Structural polymorphism in the L1 loop regions of human H2A.Z.1 and H2A.Z.2
Acta Crystallogr.,Sect.D, 69:2431-2439, 2013

PubMed Abstract: The histone H2A.Z variant is widely conserved among eukaryotes. Two isoforms, H2A.Z.1 and H2A.Z.2, have been identified in vertebrates and may have distinct functions in cell growth and gene expression. However, no structural differences between H2A.Z.1 and H2A.Z.2 have been reported. In the present study, the crystal structures of nucleosomes containing human H2A.Z.1 and H2A.Z.2 were determined. The structures of the L1 loop regions were found to clearly differ between H2A.Z.1 and H2A.Z.2, although their amino-acid sequences in this region are identical. This structural polymorphism may have been induced by a substitution that evolutionally occurred at the position of amino acid 38 and by the flexible nature of the L1 loops of H2A.Z.1 and H2A.Z.2. It was also found that in living cells nucleosomal H2A.Z.1 exchanges more rapidly than H2A.Z.2. A mutational analysis revealed that the amino-acid difference at position 38 is at least partially responsible for the distinctive dynamics of H2A.Z.1 and H2A.Z.2. These findings provide important new information for understanding the differences in the regulation and functions of H2A.Z.1 and H2A.Z.2 in cells.

PubMed: 24311584
DOI: 10.1107/S090744491302252X

Experimental method

X-RAY DIFFRACTION (3.07 Å)