+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 7mk2 | ||||||||||||
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タイトル | CryoEM Structure of NPR1 | ||||||||||||
要素 | Regulatory protein NPR1 | ||||||||||||
キーワード | PLANT PROTEIN / IMMUNE SYSTEM / NPR1 / SAR / plant immunity | ||||||||||||
機能・相同性 | 機能・相同性情報 response to herbivore / regulation of defense response to bacterium / regulation of salicylic acid mediated signaling pathway / regulation of systemic acquired resistance / negative regulation of defense response / regulation of jasmonic acid mediated signaling pathway / induced systemic resistance / extracellular ATP signaling / response to insect / systemic acquired resistance ...response to herbivore / regulation of defense response to bacterium / regulation of salicylic acid mediated signaling pathway / regulation of systemic acquired resistance / negative regulation of defense response / regulation of jasmonic acid mediated signaling pathway / induced systemic resistance / extracellular ATP signaling / response to insect / systemic acquired resistance / systemic acquired resistance, salicylic acid mediated signaling pathway / salicylic acid binding / plant-type hypersensitive response / response to salicylic acid / defense response to fungus / response to bacterium / transcription coregulator activity / response to wounding / RNA polymerase II transcription regulator complex / response to heat / response to hypoxia / nuclear body / protein ubiquitination / defense response to bacterium / positive regulation of DNA-templated transcription / nucleus / cytoplasm 類似検索 - 分子機能 | ||||||||||||
生物種 | Arabidopsis thaliana (シロイヌナズナ) | ||||||||||||
手法 | 電子顕微鏡法 / 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 3.8 Å | ||||||||||||
データ登録者 | Kumar, S. / Zhou, Y. / Dillard, L. / Borgnia, M. / Bartesaghi, A. / Zhou, P. | ||||||||||||
資金援助 | 米国, 3件
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引用 | ジャーナル: Nature / 年: 2022 タイトル: Structural basis of NPR1 in activating plant immunity. 著者: Shivesh Kumar / Raul Zavaliev / Qinglin Wu / Ye Zhou / Jie Cheng / Lucas Dillard / Jordan Powers / John Withers / Jinshi Zhao / Ziqiang Guan / Mario J Borgnia / Alberto Bartesaghi / Xinnian Dong / Pei Zhou / 要旨: NPR1 is a master regulator of the defence transcriptome induced by the plant immune signal salicylic acid. Despite the important role of NPR1 in plant immunity, understanding of its regulatory ...NPR1 is a master regulator of the defence transcriptome induced by the plant immune signal salicylic acid. Despite the important role of NPR1 in plant immunity, understanding of its regulatory mechanisms has been hindered by a lack of structural information. Here we report cryo-electron microscopy and crystal structures of Arabidopsis NPR1 and its complex with the transcription factor TGA3. Cryo-electron microscopy analysis reveals that NPR1 is a bird-shaped homodimer comprising a central Broad-complex, Tramtrack and Bric-à-brac (BTB) domain, a BTB and carboxyterminal Kelch helix bundle, four ankyrin repeats and a disordered salicylic-acid-binding domain. Crystal structure analysis reveals a unique zinc-finger motif in BTB for interacting with ankyrin repeats and mediating NPR1 oligomerization. We found that, after stimulation, salicylic-acid-induced folding and docking of the salicylic-acid-binding domain onto ankyrin repeats is required for the transcriptional cofactor activity of NPR1, providing a structural explanation for a direct role of salicylic acid in regulating NPR1-dependent gene expression. Moreover, our structure of the TGA3-NPR1-TGA3 complex, DNA-binding assay and genetic data show that dimeric NPR1 activates transcription by bridging two fatty-acid-bound TGA3 dimers to form an enhanceosome. The stepwise assembly of the NPR1-TGA complex suggests possible hetero-oligomeric complex formation with other transcription factors, revealing how NPR1 reprograms the defence transcriptome. | ||||||||||||
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 | 分子: MolmilJmol/JSmol |
-ダウンロードとリンク
-ダウンロード
PDBx/mmCIF形式 | 7mk2.cif.gz | 136.5 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb7mk2.ent.gz | 100.6 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 7mk2.json.gz | ツリー表示 | PDBx/mmJSON形式 | |
その他 | その他のダウンロード |
-検証レポート
アーカイブディレクトリ | https://data.pdbj.org/pub/pdb/validation_reports/mk/7mk2 ftp://data.pdbj.org/pub/pdb/validation_reports/mk/7mk2 | HTTPS FTP |
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-関連構造データ
-リンク
-集合体
登録構造単位 |
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-要素
#1: タンパク質 | 分子量: 67547.422 Da / 分子数: 2 / 由来タイプ: 組換発現 由来: (組換発現) Arabidopsis thaliana (シロイヌナズナ) 遺伝子: NPR1, NIM1, SAI1, At1g64280, F15H21.6 発現宿主: Spodoptera frugiperda (ツマジロクサヨトウ) 参照: UniProt: P93002 #2: 化合物 | 研究の焦点であるリガンドがあるか | Y | |
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-実験情報
-実験
実験 | 手法: 電子顕微鏡法 |
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EM実験 | 試料の集合状態: PARTICLE / 3次元再構成法: 単粒子再構成法 |
-試料調製
構成要素 | 名称: NPR1 dimer / タイプ: COMPLEX / Entity ID: #1 / 由来: RECOMBINANT |
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由来(天然) | 生物種: Arabidopsis thaliana (シロイヌナズナ) |
由来(組換発現) | 生物種: Spodoptera frugiperda (ツマジロクサヨトウ) |
緩衝液 | pH: 7.5 / 詳細: 25 mM HEPES (pH 7.5), 150 mM NaCl, 2 mM DTT |
試料 | 包埋: NO / シャドウイング: NO / 染色: NO / 凍結: YES |
試料支持 | グリッドの材料: GOLD / グリッドのサイズ: 300 divisions/in. / グリッドのタイプ: UltrAuFoil |
急速凍結 | 凍結剤: ETHANE |
-電子顕微鏡撮影
実験機器 | モデル: Talos Arctica / 画像提供: FEI Company |
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顕微鏡 | モデル: FEI TALOS ARCTICA |
電子銃 | 電子線源: FIELD EMISSION GUN / 加速電圧: 200 kV / 照射モード: FLOOD BEAM |
電子レンズ | モード: BRIGHT FIELD |
試料ホルダ | 凍結剤: NITROGEN |
撮影 | 電子線照射量: 60 e/Å2 フィルム・検出器のモデル: GATAN K2 SUMMIT (4k x 4k) |
-解析
ソフトウェア | 名称: PHENIX / バージョン: dev_3922: / 分類: 精密化 | ||||||||||||||||||||||||
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CTF補正 | タイプ: PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||||||||||||||||||||||
対称性 | 点対称性: C2 (2回回転対称) | ||||||||||||||||||||||||
3次元再構成 | 解像度: 3.8 Å / 解像度の算出法: FSC 0.143 CUT-OFF / 粒子像の数: 75705 / アルゴリズム: FOURIER SPACE / 対称性のタイプ: POINT | ||||||||||||||||||||||||
拘束条件 |
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