+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-5922 | |||||||||
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タイトル | 3.6 Angstrom resolution MAVS filament generated from helical reconstruction | |||||||||
マップデータ | 3.6 Angstrom resolution MAVS filament generated from helical reconstruction | |||||||||
試料 |
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キーワード | CARD / MAVS / innate immunity / RIG-I / MDA5 / spontaneous filament formation | |||||||||
機能・相同性 | 機能・相同性情報 positive regulation of IP-10 production / regulation of peroxisome organization / RIG-I binding / positive regulation of chemokine (C-C motif) ligand 5 production / positive regulation of myeloid dendritic cell cytokine production / CARD domain binding / NF-kB activation through FADD/RIP-1 pathway mediated by caspase-8 and -10 / protein localization to mitochondrion / positive regulation of response to cytokine stimulus / positive regulation of type I interferon-mediated signaling pathway ...positive regulation of IP-10 production / regulation of peroxisome organization / RIG-I binding / positive regulation of chemokine (C-C motif) ligand 5 production / positive regulation of myeloid dendritic cell cytokine production / CARD domain binding / NF-kB activation through FADD/RIP-1 pathway mediated by caspase-8 and -10 / protein localization to mitochondrion / positive regulation of response to cytokine stimulus / positive regulation of type I interferon-mediated signaling pathway / peroxisomal membrane / TRAF6 mediated IRF7 activation / negative regulation of type I interferon-mediated signaling pathway / positive regulation of NLRP3 inflammasome complex assembly / cytoplasmic pattern recognition receptor signaling pathway / negative regulation of viral genome replication / type I interferon-mediated signaling pathway / cellular response to exogenous dsRNA / TRAF6 mediated NF-kB activation / positive regulation of interferon-alpha production / positive regulation of type I interferon production / signaling adaptor activity / ubiquitin ligase complex / antiviral innate immune response / positive regulation of defense response to virus by host / activation of innate immune response / positive regulation of interferon-beta production / molecular condensate scaffold activity / positive regulation of interleukin-8 production / Negative regulators of DDX58/IFIH1 signaling / positive regulation of DNA-binding transcription factor activity / DDX58/IFIH1-mediated induction of interferon-alpha/beta / PKR-mediated signaling / mitochondrial membrane / Evasion by RSV of host interferon responses / positive regulation of protein import into nucleus / positive regulation of interleukin-6 production / SARS-CoV-1 activates/modulates innate immune responses / positive regulation of tumor necrosis factor production / Ovarian tumor domain proteases / TRAF3-dependent IRF activation pathway / positive regulation of canonical NF-kappaB signal transduction / defense response to virus / mitochondrial outer membrane / molecular adaptor activity / defense response to bacterium / positive regulation of protein phosphorylation / innate immune response / protein kinase binding / SARS-CoV-2 activates/modulates innate and adaptive immune responses / signal transduction / positive regulation of transcription by RNA polymerase II / mitochondrion / identical protein binding 類似検索 - 分子機能 | |||||||||
生物種 | Homo sapiens (ヒト) | |||||||||
手法 | らせん対称体再構成法 / クライオ電子顕微鏡法 / 解像度: 3.64 Å | |||||||||
データ登録者 | Wu B / Peisley A / Li Z / Egelman E / Walz T / Penczek P / Hur S | |||||||||
引用 | ジャーナル: Mol Cell / 年: 2014 タイトル: Molecular imprinting as a signal-activation mechanism of the viral RNA sensor RIG-I. 著者: Bin Wu / Alys Peisley / David Tetrault / Zongli Li / Edward H Egelman / Katharine E Magor / Thomas Walz / Pawel A Penczek / Sun Hur / 要旨: RIG-I activates interferon signaling pathways by promoting filament formation of the adaptor molecule, MAVS. Assembly of the MAVS filament is mediated by its CARD domain (CARD(MAVS)), and requires ...RIG-I activates interferon signaling pathways by promoting filament formation of the adaptor molecule, MAVS. Assembly of the MAVS filament is mediated by its CARD domain (CARD(MAVS)), and requires its interaction with the tandem CARDs of RIG-I (2CARD(RIG-I)). However, the precise nature of the interaction between 2CARD(RIG-I) and CARD(MAVS), and how this interaction leads to CARD(MAVS) filament assembly, has been unclear. Here we report a 3.6 Å electron microscopy structure of the CARD(MAVS) filament and a 3.4 Å crystal structure of the 2CARD(RIG-I):CARD(MAVS) complex, representing 2CARD(RIG-I) "caught in the act" of nucleating the CARD(MAVS) filament. These structures, together with functional analyses, show that 2CARD(RIG-I) acts as a template for the CARD(MAVS) filament assembly, by forming a helical tetrameric structure and recruiting CARD(MAVS) along its helical trajectory. Our work thus reveals that signal activation by RIG-I occurs by imprinting its helical assembly architecture on MAVS, a previously uncharacterized mechanism of signal transmission. | |||||||||
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_5922.map.gz | 8.1 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-5922-v30.xml emd-5922.xml | 9.5 KB 9.5 KB | 表示 表示 | EMDBヘッダ |
画像 | 400_5922.gif 80_5922.gif | 95.5 KB 5.9 KB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-5922 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-5922 | 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_5922.map.gz / 形式: CCP4 / 大きさ: 12.2 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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注釈 | 3.6 Angstrom resolution MAVS filament generated from helical reconstruction | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 0.62 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 : MAVS filament
全体 | 名称: MAVS filament |
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要素 |
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-超分子 #1000: MAVS filament
超分子 | 名称: MAVS filament / タイプ: sample / ID: 1000 / 詳細: The density is only a section of the filament. / 集合状態: filament / Number unique components: 1 |
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分子量 | 実験値: 150 KDa / 理論値: 150 KDa / 手法: Size exclusion chromatography |
-分子 #1: Mitochondria Anti-viral Signaling protein, CARD domain
分子 | 名称: Mitochondria Anti-viral Signaling protein, CARD domain タイプ: protein_or_peptide / ID: 1 / Name.synonym: MAVS / 集合状態: filament / 組換発現: Yes |
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由来(天然) | 生物種: Homo sapiens (ヒト) / 別称: human |
組換発現 | 生物種: Escherichia coli (大腸菌) / 組換株: BL21(DE3) |
配列 | UniProtKB: Mitochondrial antiviral-signaling protein |
-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 | らせん対称体再構成法 |
試料の集合状態 | filament |
-試料調製
濃度 | 0.2 mg/mL |
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緩衝液 | pH: 7.5 / 詳細: 20 mM Tris, 150 mM NaCl |
グリッド | 詳細: glow-discharged Quantifoil R1.2/1.3 holey carbon grids |
凍結 | 凍結剤: NITROGEN / 装置: FEI VITROBOT MARK I |
-電子顕微鏡法
顕微鏡 | FEI TECNAI F20 |
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特殊光学系 | エネルギーフィルター - 名称: FEI |
詳細 | Movies were recorded at liquid nitrogen temperature with a K2 Summit direct detector device camera operated in super-resolution mode with dose-fractionation. |
日付 | 2013年8月10日 |
撮影 | カテゴリ: CCD / フィルム・検出器のモデル: GATAN K2 (4k x 4k) / 実像数: 1863 / 平均電子線量: 31 e/Å2 |
電子線 | 加速電圧: 200 kV / 電子線源: FIELD EMISSION GUN |
電子光学系 | 倍率(補正後): 40410 / 照射モード: FLOOD BEAM / 撮影モード: BRIGHT FIELD / 倍率(公称値): 29000 |
試料ステージ | 試料ホルダーモデル: GATAN LIQUID NITROGEN |
実験機器 | モデル: Tecnai F20 / 画像提供: FEI Company |
-画像解析
詳細 | The electron density map of the filament was reconstructed using a helical geometrically constrained reconstruction approach (Helicon). |
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最終 再構成 | 想定した対称性 - らせんパラメータ - Δz: 5.13 Å 想定した対称性 - らせんパラメータ - ΔΦ: 101.1 ° 想定した対称性 - らせんパラメータ - 軸対称性: C1 (非対称) 解像度のタイプ: BY AUTHOR / 解像度: 3.64 Å / 解像度の算出法: OTHER / ソフトウェア - 名称: Helicon |