- EMDB-7307: Structure of PRC2 bound to a H3K27me3/WT hetero-dinucleosome subs... -
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基本情報
登録情報
データベース: EMDB / ID: EMD-7307
タイトル
Structure of PRC2 bound to a H3K27me3/WT hetero-dinucleosome substrate with a 30 bp DNA linker
マップデータ
PRC2 bound to a hetero-dinucleosome with 30 bp linker DNA
試料
複合体: Human Polycomb Repressive Complex 2 (PRC2) in complex with a heterodinucleosome composed of an unmodified nucleosome and a nucleosome carrying an H3K27 pseudo-trimethyl mark, connected by 30 bp of linker DNA
ジャーナル: Nat Struct Mol Biol / 年: 2018 タイトル: Cryo-EM structures of PRC2 simultaneously engaged with two functionally distinct nucleosomes. 著者: Simon Poepsel / Vignesh Kasinath / Eva Nogales / 要旨: Epigenetic regulation is mediated by protein complexes that couple recognition of chromatin marks to activity or recruitment of chromatin-modifying enzymes. Polycomb repressive complex 2 (PRC2), a ...Epigenetic regulation is mediated by protein complexes that couple recognition of chromatin marks to activity or recruitment of chromatin-modifying enzymes. Polycomb repressive complex 2 (PRC2), a gene silencer that methylates lysine 27 of histone H3, is stimulated upon recognition of its own catalytic product and has been shown to be more active on dinucleosomes than H3 tails or single nucleosomes. These properties probably facilitate local H3K27me2/3 spreading, causing heterochromatin formation and gene repression. Here, cryo-EM reconstructions of human PRC2 bound to bifunctional dinucleosomes show how a single PRC2, via interactions with nucleosomal DNA, positions the H3 tails of the activating and substrate nucleosome to interact with the EED subunit and the SET domain of EZH2, respectively. We show how the geometry of the PRC2-DNA interactions allows PRC2 to accommodate varying lengths of the linker DNA between nucleosomes. Our structures illustrate how an epigenetic regulator engages with a complex chromatin substrate.
ダウンロード / ファイル: emd_7307.map.gz / 形式: CCP4 / 大きさ: 125 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
注釈
PRC2 bound to a hetero-dinucleosome with 30 bp linker DNA
ボクセルのサイズ
X=Y=Z: 1.32 Å
密度
表面レベル
登録者による: 0.0366 / ムービー #1: 0.0366
最小 - 最大
-0.021717602 - 0.092345126
平均 (標準偏差)
0.00031725215 (±0.004637087)
対称性
空間群: 1
詳細
EMDB XML:
マップ形状
Axis order
X
Y
Z
Origin
0
0
0
サイズ
320
320
320
Spacing
320
320
320
セル
A=B=C: 422.40002 Å α=β=γ: 90.0 °
CCP4マップ ヘッダ情報:
mode
Image stored as Reals
Å/pix. X/Y/Z
1.32
1.32
1.32
M x/y/z
320
320
320
origin x/y/z
0.000
0.000
0.000
length x/y/z
422.400
422.400
422.400
α/β/γ
90.000
90.000
90.000
start NX/NY/NZ
-210
-210
-210
NX/NY/NZ
420
420
420
MAP C/R/S
1
2
3
start NC/NR/NS
0
0
0
NC/NR/NS
320
320
320
D min/max/mean
-0.022
0.092
0.000
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添付データ
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試料の構成要素
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全体 : Human Polycomb Repressive Complex 2 (PRC2) in complex with a hete...
全体
名称: Human Polycomb Repressive Complex 2 (PRC2) in complex with a heterodinucleosome composed of an unmodified nucleosome and a nucleosome carrying an H3K27 pseudo-trimethyl mark, connected by 30 bp of linker DNA
要素
複合体: Human Polycomb Repressive Complex 2 (PRC2) in complex with a heterodinucleosome composed of an unmodified nucleosome and a nucleosome carrying an H3K27 pseudo-trimethyl mark, connected by 30 bp of linker DNA
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超分子 #1: Human Polycomb Repressive Complex 2 (PRC2) in complex with a hete...
超分子
名称: Human Polycomb Repressive Complex 2 (PRC2) in complex with a heterodinucleosome composed of an unmodified nucleosome and a nucleosome carrying an H3K27 pseudo-trimethyl mark, connected by 30 bp of linker DNA タイプ: complex / ID: 1 / 親要素: 0 / 含まれる分子: #1
由来(天然)
生物種: Homo sapiens (ヒト)
組換発現
生物種: Trichoplusia ni (イラクサキンウワバ)
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実験情報
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構造解析
手法
クライオ電子顕微鏡法
解析
単粒子再構成法
試料の集合状態
particle
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試料調製
濃度
1 mg/mL
緩衝液
pH: 7.9
凍結
凍結剤: ETHANE / チャンバー内湿度: 100 % / チャンバー内温度: 281 K / 装置: FEI VITROBOT MARK IV
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電子顕微鏡法
顕微鏡
FEI TITAN
撮影
フィルム・検出器のモデル: GATAN K2 SUMMIT (4k x 4k) 平均電子線量: 40.0 e/Å2