+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-2971 | |||||||||
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タイトル | Structure and assembly of the mouse ASC filament | |||||||||
マップデータ | Reconstruction of ASC-PYD filament | |||||||||
試料 |
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キーワード | ASC Apoptosis associated speck like protein containing a CARD / CARD caspase recruitment and activation domain / PYD PYRIN domain / PYHIN pyrin domain and hematopoietic expression / interferon inducibility / nuclear localization domain containing / NLR NOD like receptor / BIR Baculovirus IAP repeat domain | |||||||||
機能・相同性 | 機能・相同性情報 interleukin-1 beta production / CLEC7A/inflammasome pathway / positive regulation of chemokine production => GO:0032722 / Pyrin domain binding / myosin I binding / positive regulation of antigen processing and presentation of peptide antigen via MHC class II / regulation of cysteine-type endopeptidase activity involved in apoptotic process / myeloid dendritic cell activation involved in immune response / regulation of intrinsic apoptotic signaling pathway / peptidase activator activity involved in apoptotic process ...interleukin-1 beta production / CLEC7A/inflammasome pathway / positive regulation of chemokine production => GO:0032722 / Pyrin domain binding / myosin I binding / positive regulation of antigen processing and presentation of peptide antigen via MHC class II / regulation of cysteine-type endopeptidase activity involved in apoptotic process / myeloid dendritic cell activation involved in immune response / regulation of intrinsic apoptotic signaling pathway / peptidase activator activity involved in apoptotic process / myeloid dendritic cell activation / IkappaB kinase complex / AIM2 inflammasome complex / 飲作用 / NLRP1 inflammasome complex / interleukin-6 receptor binding / positive regulation of adaptive immune response / BMP receptor binding / NLRP3 inflammasome complex / negative regulation of protein serine/threonine kinase activity / negative regulation of interferon-beta production / positive regulation of cysteine-type endopeptidase activity / regulation of tumor necrosis factor-mediated signaling pathway / activation of cysteine-type endopeptidase activity / positive regulation of extrinsic apoptotic signaling pathway / cysteine-type endopeptidase activity involved in apoptotic process / tropomyosin binding / positive regulation of actin filament polymerization / regulation of GTPase activity / negative regulation of NF-kappaB transcription factor activity / positive regulation of activated T cell proliferation / positive regulation of release of cytochrome c from mitochondria / positive regulation of interleukin-10 production / positive regulation of cysteine-type endopeptidase activity involved in apoptotic process / intrinsic apoptotic signaling pathway by p53 class mediator / intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator / negative regulation of cytokine production involved in inflammatory response / positive regulation of T cell migration / cellular response to interleukin-1 / positive regulation of phagocytosis / negative regulation of canonical NF-kappaB signal transduction / positive regulation of defense response to virus by host / tumor necrosis factor-mediated signaling pathway / activation of innate immune response / Neutrophil degranulation / positive regulation of interleukin-1 beta production / regulation of autophagy / positive regulation of interleukin-8 production / response to bacterium / positive regulation of JNK cascade / regulation of protein stability / protein homooligomerization / positive regulation of interleukin-6 production / activation of cysteine-type endopeptidase activity involved in apoptotic process / positive regulation of DNA-binding transcription factor activity / positive regulation of T cell activation / positive regulation of type II interferon production / positive regulation of tumor necrosis factor production / cellular response to tumor necrosis factor / positive regulation of NF-kappaB transcription factor activity / regulation of inflammatory response / regulation of apoptotic process / defense response to virus / cellular response to lipopolysaccharide / protease binding / defense response to Gram-negative bacterium / transmembrane transporter binding / positive regulation of ERK1 and ERK2 cascade / protein dimerization activity / 炎症 / positive regulation of apoptotic process / ゴルジ体 / 自然免疫系 / neuronal cell body / apoptotic process / 核小体 / enzyme binding / 小胞体 / protein homodimerization activity / protein-containing complex / ミトコンドリア / extracellular region / 核質 / identical protein binding / 細胞核 / 細胞質基質 / 細胞質 類似検索 - 分子機能 | |||||||||
生物種 | Mus musculus (ハツカネズミ) | |||||||||
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: 4.0 Å | |||||||||
データ登録者 | Sborgi L / Ravotti F / Dandey VP / Dick MS / Mazur A / Reckel S / Chami M / Scherer S / Bockmann A / Egelman EH ...Sborgi L / Ravotti F / Dandey VP / Dick MS / Mazur A / Reckel S / Chami M / Scherer S / Bockmann A / Egelman EH / Stahlberg H / Broz P / Meier BH / Hiller S | |||||||||
引用 | ジャーナル: Proc Natl Acad Sci U S A / 年: 2015 タイトル: Structure and assembly of the mouse ASC inflammasome by combined NMR spectroscopy and cryo-electron microscopy. 著者: Lorenzo Sborgi / Francesco Ravotti / Venkata P Dandey / Mathias S Dick / Adam Mazur / Sina Reckel / Mohamed Chami / Sebastian Scherer / Matthias Huber / Anja Böckmann / Edward H Egelman / ...著者: Lorenzo Sborgi / Francesco Ravotti / Venkata P Dandey / Mathias S Dick / Adam Mazur / Sina Reckel / Mohamed Chami / Sebastian Scherer / Matthias Huber / Anja Böckmann / Edward H Egelman / Henning Stahlberg / Petr Broz / Beat H Meier / Sebastian Hiller / 要旨: Inflammasomes are multiprotein complexes that control the innate immune response by activating caspase-1, thus promoting the secretion of cytokines in response to invading pathogens and endogenous ...Inflammasomes are multiprotein complexes that control the innate immune response by activating caspase-1, thus promoting the secretion of cytokines in response to invading pathogens and endogenous triggers. Assembly of inflammasomes is induced by activation of a receptor protein. Many inflammasome receptors require the adapter protein ASC [apoptosis-associated speck-like protein containing a caspase-recruitment domain (CARD)], which consists of two domains, the N-terminal pyrin domain (PYD) and the C-terminal CARD. Upon activation, ASC forms large oligomeric filaments, which facilitate procaspase-1 recruitment. Here, we characterize the structure and filament formation of mouse ASC in vitro at atomic resolution. Information from cryo-electron microscopy and solid-state NMR spectroscopy is combined in a single structure calculation to obtain the atomic-resolution structure of the ASC filament. Perturbations of NMR resonances upon filament formation monitor the specific binding interfaces of ASC-PYD association. Importantly, NMR experiments show the rigidity of the PYD forming the core of the filament as well as the high mobility of the CARD relative to this core. The findings are validated by structure-based mutagenesis experiments in cultured macrophages. The 3D structure of the mouse ASC-PYD filament is highly similar to the recently determined human ASC-PYD filament, suggesting evolutionary conservation of ASC-dependent inflammasome mechanisms. | |||||||||
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_2971.map.gz | 6.9 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-2971-v30.xml emd-2971.xml | 10.1 KB 10.1 KB | 表示 表示 | EMDBヘッダ |
画像 | emd_2971.jpg | 1.9 MB | ||
Filedesc structureFactors | emd_2971_sf.cif.gz | 684.2 KB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-2971 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-2971 | 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_2971.map.gz / 形式: CCP4 / 大きさ: 23.8 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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注釈 | Reconstruction of ASC-PYD filament | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 0.67 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 : Mouse ASC-PYD filament
全体 | 名称: Mouse ASC-PYD filament |
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要素 |
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-超分子 #1000: Mouse ASC-PYD filament
超分子 | 名称: Mouse ASC-PYD filament / タイプ: sample / ID: 1000 / Number unique components: 1 |
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-分子 #1: mouse ASC filament
分子 | 名称: mouse ASC filament / タイプ: protein_or_peptide / ID: 1 / コピー数: 1 / 組換発現: Yes |
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由来(天然) | 生物種: Mus musculus (ハツカネズミ) / 別称: mouse |
組換発現 | 生物種: Escherichia coli BL21(DE3) (大腸菌) / 組換株: pLysS / 組換プラスミド: pET28a |
-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
緩衝液 | pH: 8 / 詳細: 25mM Tris 300mM NaCl |
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凍結 | 凍結剤: ETHANE / 装置: FEI VITROBOT MARK IV 詳細: vitrified by plunging into liquid nitrogen-cooled liquid ethane 手法: The grids were blotted for 1 s before plunging |
-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: TUNGSTEN HAIRPIN |
電子光学系 | 照射モード: SPOT SCAN / 撮影モード: DIFFRACTION回折 / 倍率(公称値): 22500 |
試料ステージ | 試料ホルダーモデル: FEI TITAN KRIOS AUTOGRID HOLDER Tilt angle min: -12 / Tilt angle max: 12 |
日付 | 2014年10月10日 |
撮影 | カテゴリ: CCD フィルム・検出器のモデル: DIRECT ELECTRON DE-10 (5k x 4k) デジタル化 - サンプリング間隔: 5 µm / 実像数: 21138 / 平均電子線量: 20 e/Å2 |
実験機器 | モデル: Titan Krios / 画像提供: FEI Company |
-画像解析
CTF補正 | 詳細: CTFFIND3 |
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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: 14.2 Å 想定した対称性 - らせんパラメータ - ΔΦ: 53 ° 想定した対称性 - らせんパラメータ - 軸対称性: C3 (3回回転対称) アルゴリズム: OTHER / 解像度のタイプ: BY AUTHOR / 解像度: 4.0 Å / 解像度の算出法: OTHER / ソフトウェア - 名称: EMAN2, IHRSR, SPIDER |
詳細 | The particles were aligned using IHRSR |