+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-30285 | |||||||||
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タイトル | Cryo-EM structure of the yeast Swi/Snf complex in a nucleosome free state | |||||||||
マップデータ | The 2.9 angstrom EM map of the yeast Swi/Snf complex in a nucleosome free state | |||||||||
試料 |
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キーワード | SWI/SNF remodeling / Swi-Snf complex / nucleosome (ヌクレオソーム) / DNA BINDING PROTEIN (DNA結合タンパク質) | |||||||||
機能・相同性 | 機能・相同性情報 carbon catabolite activation of transcription from RNA polymerase II promoter / positive regulation of cell adhesion involved in single-species biofilm formation / positive regulation of mating type switching / RHO GTPases activate IQGAPs / RHO GTPases Activate WASPs and WAVEs / Regulation of actin dynamics for phagocytic cup formation / positive regulation of invasive growth in response to glucose limitation / HDACs deacetylate histones / aggrephagy / Platelet degranulation ...carbon catabolite activation of transcription from RNA polymerase II promoter / positive regulation of cell adhesion involved in single-species biofilm formation / positive regulation of mating type switching / RHO GTPases activate IQGAPs / RHO GTPases Activate WASPs and WAVEs / Regulation of actin dynamics for phagocytic cup formation / positive regulation of invasive growth in response to glucose limitation / HDACs deacetylate histones / aggrephagy / Platelet degranulation / DNA strand invasion / rDNA binding / : / SUMOylation of chromatin organization proteins / nucleosome disassembly / RSC-type complex / SWI/SNF complex / ATP-dependent chromatin remodeler activity / nucleosomal DNA binding / NuA4 histone acetyltransferase complex / nuclear chromosome / positive regulation of transcription by RNA polymerase I / ATP-dependent activity, acting on DNA / maturation of LSU-rRNA / helicase activity / chromosome segregation / transcription elongation by RNA polymerase II / nucleotide-excision repair / double-strand break repair via homologous recombination / 加水分解酵素; 酸無水物に作用; 酸無水物に作用・細胞または細胞小器官の運動に関与 / lysine-acetylated histone binding / DNA-templated DNA replication / chromatin DNA binding / double-strand break repair / chromatin organization / histone binding / RNA polymerase II-specific DNA-binding transcription factor binding / transcription cis-regulatory region binding / hydrolase activity / クロマチンリモデリング / chromatin binding / クロマチン / regulation of DNA-templated transcription / regulation of transcription by RNA polymerase II / structural molecule activity / positive regulation of DNA-templated transcription / positive regulation of transcription by RNA polymerase II / DNA binding / ATP binding / metal ion binding / 細胞核 / 細胞質基質 類似検索 - 分子機能 | |||||||||
生物種 | Saccharomyces cerevisiae S288C (パン酵母) | |||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 2.89 Å | |||||||||
データ登録者 | Wang CC / Guo ZY | |||||||||
資金援助 | 中国, 2件
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引用 | ジャーナル: Nat Commun / 年: 2020 タイトル: Structure of the yeast Swi/Snf complex in a nucleosome free state. 著者: Chengcheng Wang / Zhouyan Guo / Xiechao Zhan / Fenghua Yang / Mingxuan Wu / Xiaofeng Zhang / 要旨: SWI/SNF remodelers play a key role in regulating chromatin architecture and gene expression. Here, we report the cryo-EM structure of the Saccharomyces cerevisiae Swi/Snf complex in a nucleosome-free ...SWI/SNF remodelers play a key role in regulating chromatin architecture and gene expression. Here, we report the cryo-EM structure of the Saccharomyces cerevisiae Swi/Snf complex in a nucleosome-free state. The structure consists of a stable triangular base module and a flexible Arp module. The conserved subunits Swi1 and Swi3 form the backbone of the complex and closely interact with other components. Snf6, which is specific for yeast Swi/Snf complex, stabilizes the binding of the ATPase-containing subunit Snf2 to the base module. Comparison of the yeast Swi/Snf and RSC complexes reveals conserved structural features that govern the assembly and function of these two subfamilies of chromatin remodelers. Our findings complement those from recent structures of the yeast and human chromatin remodelers and provide further insights into the assembly and function of the SWI/SNF remodelers. | |||||||||
履歴 |
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-構造の表示
ムービー |
ムービービューア |
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構造ビューア | EMマップ: SurfViewMolmilJmol/JSmol |
添付画像 |
-ダウンロードとリンク
-EMDBアーカイブ
マップデータ | emd_30285.map.gz | 117 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-30285-v30.xml emd-30285.xml | 25.6 KB 25.6 KB | 表示 表示 | EMDBヘッダ |
画像 | emd_30285.png | 155.2 KB | ||
Filedesc metadata | emd-30285.cif.gz | 9.8 KB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-30285 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-30285 | HTTPS FTP |
-関連構造データ
-リンク
EMDBのページ | EMDB (EBI/PDBe) / EMDataResource |
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「今月の分子」の関連する項目 |
-マップ
ファイル | ダウンロード / ファイル: emd_30285.map.gz / 形式: CCP4 / 大きさ: 125 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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注釈 | The 2.9 angstrom EM map of the yeast Swi/Snf complex in a nucleosome free state | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 1.087 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
密度 |
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対称性 | 空間群: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
詳細 | EMDB XML:
CCP4マップ ヘッダ情報:
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-添付データ
-試料の構成要素
+全体 : the yeast Swi/Snf complex
+超分子 #1: the yeast Swi/Snf complex
+分子 #1: Transcription regulatory protein SNF12
+分子 #2: SWI/SNF complex subunit SWI3
+分子 #3: Transcription regulatory protein SNF6
+分子 #4: SWI/SNF global transcription activator complex subunit SWP82
+分子 #5: SWI/SNF chromatin-remodeling complex subunit SNF5
+分子 #6: Transcription regulatory protein SNF2
+分子 #7: SWI/SNF chromatin-remodeling complex subunit SWI1
+分子 #8: Unkown
+分子 #9: Regulator of Ty1 transposition protein 102
+分子 #10: Actin-related protein 7
+分子 #11: Actin-like protein ARP9
-実験情報
-構造解析
手法 | クライオ電子顕微鏡法 |
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解析 | 単粒子再構成法 |
試料の集合状態 | particle |
-試料調製
緩衝液 | pH: 7.4 |
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凍結 | 凍結剤: ETHANE |
-電子顕微鏡法
顕微鏡 | FEI TITAN KRIOS |
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電子線 | 加速電圧: 300 kV / 電子線源: FIELD EMISSION GUN |
電子光学系 | 照射モード: FLOOD BEAM / 撮影モード: BRIGHT FIELDBright-field microscopy / Cs: 2.7 mm |
試料ステージ | ホルダー冷却材: NITROGEN |
撮影 | フィルム・検出器のモデル: GATAN K3 (6k x 4k) / 平均電子線量: 50.0 e/Å2 |
実験機器 | モデル: Titan Krios / 画像提供: FEI Company |
-画像解析
初期モデル | モデルのタイプ: NONE |
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初期 角度割当 | タイプ: MAXIMUM LIKELIHOOD |
最終 角度割当 | タイプ: MAXIMUM LIKELIHOOD |
最終 再構成 | 解像度のタイプ: BY AUTHOR / 解像度: 2.89 Å / 解像度の算出法: FSC 0.143 CUT-OFF / 使用した粒子像数: 386469 |