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データを開く
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基本情報
登録情報 | データベース: EMDB / ID: EMD-2752 | |||||||||
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タイトル | Structure of the ryanodine receptor at resolution of 8.5 A in partially open state | |||||||||
![]() | reconstruction of ryanodine receptor 1 in partially open state | |||||||||
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![]() | calcium binding / ion channel / muscular contraction / conformational changes. | |||||||||
機能・相同性 | ![]() ATP-gated ion channel activity / terminal cisterna / ryanodine receptor complex / ryanodine-sensitive calcium-release channel activity / release of sequestered calcium ion into cytosol by sarcoplasmic reticulum / ossification involved in bone maturation / skin development / organelle membrane / cellular response to caffeine / outflow tract morphogenesis ...ATP-gated ion channel activity / terminal cisterna / ryanodine receptor complex / ryanodine-sensitive calcium-release channel activity / release of sequestered calcium ion into cytosol by sarcoplasmic reticulum / ossification involved in bone maturation / skin development / organelle membrane / cellular response to caffeine / outflow tract morphogenesis / intracellularly gated calcium channel activity / toxic substance binding / smooth endoplasmic reticulum / voltage-gated calcium channel activity / skeletal muscle fiber development / striated muscle contraction / muscle contraction / release of sequestered calcium ion into cytosol / sarcoplasmic reticulum membrane / cellular response to calcium ion / sarcoplasmic reticulum / calcium ion transmembrane transport / calcium channel activity / sarcolemma / Z disc / intracellular calcium ion homeostasis / disordered domain specific binding / protein homotetramerization / transmembrane transporter binding / calmodulin binding / calcium ion binding / ATP binding / identical protein binding / membrane 類似検索 - 分子機能 | |||||||||
生物種 | ![]() ![]() | |||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 8.5 Å | |||||||||
![]() | Efremov RG / Leitner A / Aebersold R / Raunser S | |||||||||
![]() | ![]() タイトル: Architecture and conformational switch mechanism of the ryanodine receptor. 著者: Rouslan G Efremov / Alexander Leitner / Ruedi Aebersold / Stefan Raunser / ![]() ![]() ![]() 要旨: Muscle contraction is initiated by the release of calcium (Ca(2+)) from the sarcoplasmic reticulum into the cytoplasm of myocytes through ryanodine receptors (RyRs). RyRs are homotetrameric channels ...Muscle contraction is initiated by the release of calcium (Ca(2+)) from the sarcoplasmic reticulum into the cytoplasm of myocytes through ryanodine receptors (RyRs). RyRs are homotetrameric channels with a molecular mass of more than 2.2 megadaltons that are regulated by several factors, including ions, small molecules and proteins. Numerous mutations in RyRs have been associated with human diseases. The molecular mechanism underlying the complex regulation of RyRs is poorly understood. Using electron cryomicroscopy, here we determine the architecture of rabbit RyR1 at a resolution of 6.1 Å. We show that the cytoplasmic moiety of RyR1 contains two large α-solenoid domains and several smaller domains, with folds suggestive of participation in protein-protein interactions. The transmembrane domain represents a chimaera of voltage-gated sodium and pH-activated ion channels. We identify the calcium-binding EF-hand domain and show that it functions as a conformational switch allosterically gating the channel. | |||||||||
履歴 |
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構造の表示
ムービー |
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構造ビューア | EMマップ: ![]() ![]() ![]() |
添付画像 |
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ダウンロードとリンク
-EMDBアーカイブ
マップデータ | ![]() | 2.1 MB | ![]() | |
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ヘッダ (付随情報) | ![]() ![]() | 12.3 KB 12.3 KB | 表示 表示 | ![]() |
FSC (解像度算出) | ![]() | 7.5 KB | 表示 | ![]() |
画像 | ![]() | 50 KB | ||
マスクデータ | ![]() | 42.9 MB | ![]() | |
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-関連構造データ
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リンク
EMDBのページ | ![]() ![]() |
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「今月の分子」の関連する項目 |
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マップ
ファイル | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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注釈 | reconstruction of ryanodine receptor 1 in partially open state | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 2.59 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
-セグメンテーションマップ: mask used for calculating FSC curve
注釈 | mask used for calculating FSC curve | ||||||||||||
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ファイル | ![]() | ||||||||||||
投影像・断面図 |
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密度ヒストグラム |
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試料の構成要素
-全体 : Ryanodine receptor 1 (calcium release channel) from rabbit
全体 | 名称: Ryanodine receptor 1 (calcium release channel) from rabbit |
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要素 |
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-超分子 #1000: Ryanodine receptor 1 (calcium release channel) from rabbit
超分子 | 名称: Ryanodine receptor 1 (calcium release channel) from rabbit タイプ: sample / ID: 1000 / 詳細: protein was reconstituted in lipid nanodiscs / 集合状態: tetramer / Number unique components: 1 |
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分子量 | 理論値: 2.26 MDa |
-分子 #1: Ryanodine receptor 1
分子 | 名称: Ryanodine receptor 1 / タイプ: protein_or_peptide / ID: 1 / Name.synonym: Skeletal muscle calcium release channel / コピー数: 4 / 集合状態: tetramer / 組換発現: No |
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由来(天然) | 生物種: ![]() ![]() |
分子量 | 理論値: 2.26 MDa |
配列 | UniProtKB: Ryanodine receptor 1 |
-実験情報
-構造解析
手法 | クライオ電子顕微鏡法 |
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![]() | 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 | 2 mg/mL |
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緩衝液 | pH: 7.4 詳細: 10 mM MOPS, 200 mM NaCl, 10mM CaCl2, 2mM DTT, 0.2% fluorinated octyl-maltoside |
グリッド | 詳細: C-Flat CF-1.2/1.3-4C holey carbon grid |
凍結 | 凍結剤: ETHANE / 装置: GATAN CRYOPLUNGE 3 手法: protein solution was applied on glow discharged grid and blotted for 1.5 seconds before plunging |
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電子顕微鏡法
顕微鏡 | JEOL 3200FSC |
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温度 | 最低: 80 K |
特殊光学系 | エネルギーフィルター - 名称: in-column omega energy filter エネルギーフィルター - エネルギー下限: 0.0 eV エネルギーフィルター - エネルギー上限: 15.0 eV |
日付 | 2012年3月12日 |
撮影 | カテゴリ: CCD フィルム・検出器のモデル: TVIPS TEMCAM-F816 (8k x 8k) 実像数: 1041 / 平均電子線量: 20 e/Å2 詳細: Images were collected automatically with EM-TOOLS software |
電子線 | 加速電圧: 200 kV / 電子線源: ![]() |
電子光学系 | 照射モード: FLOOD BEAM / 撮影モード: BRIGHT FIELD / Cs: 4.1 mm / 最大 デフォーカス(公称値): 0.0039 µm / 最小 デフォーカス(公称値): 0.0009 µm / 倍率(公称値): 60000 |
試料ステージ | 試料ホルダー: liquid nitorgen cooled / 試料ホルダーモデル: JEOL 3200FSC CRYOHOLDER |