+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-4598 | ||||||||||||||||||
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タイトル | Rhodopsin-Gi protein complex | ||||||||||||||||||
マップデータ | |||||||||||||||||||
試料 |
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機能・相同性 | 機能・相同性情報 Opsins / VxPx cargo-targeting to cilium / opsin binding / rod bipolar cell differentiation / sperm head plasma membrane / absorption of visible light / Olfactory Signaling Pathway / Sensory perception of sweet, bitter, and umami (glutamate) taste / The canonical retinoid cycle in rods (twilight vision) / Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1) ...Opsins / VxPx cargo-targeting to cilium / opsin binding / rod bipolar cell differentiation / sperm head plasma membrane / absorption of visible light / Olfactory Signaling Pathway / Sensory perception of sweet, bitter, and umami (glutamate) taste / The canonical retinoid cycle in rods (twilight vision) / Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1) / G protein-coupled opsin signaling pathway / photoreceptor inner segment membrane / podosome assembly / 11-cis retinal binding / G protein-coupled photoreceptor activity / rod photoreceptor outer segment / cellular response to light stimulus / G protein-coupled receptor complex / Inactivation, recovery and regulation of the phototransduction cascade / thermotaxis / Activation of the phototransduction cascade / phototransduction, visible light / outer membrane / response to light intensity / detection of temperature stimulus involved in thermoception / arrestin family protein binding / photoreceptor cell maintenance / Activation of G protein gated Potassium channels / G-protein activation / G beta:gamma signalling through PI3Kgamma / Prostacyclin signalling through prostacyclin receptor / G beta:gamma signalling through PLC beta / ADP signalling through P2Y purinoceptor 1 / Thromboxane signalling through TP receptor / Presynaptic function of Kainate receptors / G beta:gamma signalling through CDC42 / Inhibition of voltage gated Ca2+ channels via Gbeta/gamma subunits / Glucagon-type ligand receptors / Adrenaline,noradrenaline inhibits insulin secretion / G alpha (12/13) signalling events / G beta:gamma signalling through BTK / ADP signalling through P2Y purinoceptor 12 / Cooperation of PDCL (PhLP1) and TRiC/CCT in G-protein beta folding / Thrombin signalling through proteinase activated receptors (PARs) / Ca2+ pathway / G alpha (z) signalling events / Extra-nuclear estrogen signaling / G alpha (s) signalling events / G alpha (q) signalling events / photoreceptor outer segment membrane / G alpha (i) signalling events / Glucagon-like Peptide-1 (GLP1) regulates insulin secretion / Vasopressin regulates renal water homeostasis via Aquaporins / phototransduction / response to light stimulus / photoreceptor outer segment / G-protein alpha-subunit binding / T cell migration / Adenylate cyclase inhibitory pathway / positive regulation of protein localization to cell cortex / regulation of cAMP-mediated signaling / D2 dopamine receptor binding / G protein-coupled serotonin receptor binding / regulation of mitotic spindle organization / sperm midpiece / cellular response to forskolin / visual perception / adenylate cyclase-inhibiting G protein-coupled receptor signaling pathway / G-protein beta/gamma-subunit complex binding / guanyl-nucleotide exchange factor activity / Regulation of insulin secretion / G protein-coupled receptor binding / adenylate cyclase-modulating G protein-coupled receptor signaling pathway / response to peptide hormone / ADP signalling through P2Y purinoceptor 12 / photoreceptor disc membrane / microtubule cytoskeleton organization / G alpha (z) signalling events / Adrenaline,noradrenaline inhibits insulin secretion / ADORA2B mediated anti-inflammatory cytokines production / cellular response to catecholamine stimulus / adenylate cyclase-activating dopamine receptor signaling pathway / GPER1 signaling / cellular response to prostaglandin E stimulus / GDP binding / G-protein beta-subunit binding / heterotrimeric G-protein complex / cell-cell junction / 加水分解酵素; 酸無水物に作用; GTPに作用・細胞または細胞小器官の運動に関与 / signaling receptor complex adaptor activity / gene expression / cell cortex / midbody / G alpha (i) signalling events / G alpha (s) signalling events / Extra-nuclear estrogen signaling / G protein-coupled receptor signaling pathway / lysosomal membrane / Golgi membrane / cell division 類似検索 - 分子機能 | ||||||||||||||||||
生物種 | Homo sapiens (ヒト) / Bos taurus (ウシ) / Mus musculus (ハツカネズミ) / Bovine (ウシ) | ||||||||||||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 4.38 Å | ||||||||||||||||||
データ登録者 | Tsai C-J / Marino J / Adaixo RJ / Pamula F / Muehle J / Maeda S / Flock T / Taylor NMI / Mohammed I / Matile H ...Tsai C-J / Marino J / Adaixo RJ / Pamula F / Muehle J / Maeda S / Flock T / Taylor NMI / Mohammed I / Matile H / Dawson RJP / Deupi X / Stahlberg H / Schertler GFX | ||||||||||||||||||
資金援助 | スイス, 5件
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引用 | ジャーナル: Elife / 年: 2019 タイトル: Cryo-EM structure of the rhodopsin-Gαi-βγ complex reveals binding of the rhodopsin C-terminal tail to the gβ subunit. 著者: Ching-Ju Tsai / Jacopo Marino / Ricardo Adaixo / Filip Pamula / Jonas Muehle / Shoji Maeda / Tilman Flock / Nicholas Mi Taylor / Inayatulla Mohammed / Hugues Matile / Roger Jp Dawson / Xavier ...著者: Ching-Ju Tsai / Jacopo Marino / Ricardo Adaixo / Filip Pamula / Jonas Muehle / Shoji Maeda / Tilman Flock / Nicholas Mi Taylor / Inayatulla Mohammed / Hugues Matile / Roger Jp Dawson / Xavier Deupi / Henning Stahlberg / Gebhard Schertler / 要旨: One of the largest membrane protein families in eukaryotes are G protein-coupled receptors (GPCRs). GPCRs modulate cell physiology by activating diverse intracellular transducers, prominently ...One of the largest membrane protein families in eukaryotes are G protein-coupled receptors (GPCRs). GPCRs modulate cell physiology by activating diverse intracellular transducers, prominently heterotrimeric G proteins. The recent surge in structural data has expanded our understanding of GPCR-mediated signal transduction. However, many aspects, including the existence of transient interactions, remain elusive. We present the cryo-EM structure of the light-sensitive GPCR rhodopsin in complex with heterotrimeric Gi. Our density map reveals the receptor C-terminal tail bound to the Gβ subunit of the G protein, providing a structural foundation for the role of the C-terminal tail in GPCR signaling, and of Gβ as scaffold for recruiting Gα subunits and G protein-receptor kinases. By comparing available complexes, we found a small set of common anchoring points that are G protein-subtype specific. Taken together, our structure and analysis provide new structural basis for the molecular events of the GPCR signaling pathway. | ||||||||||||||||||
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_4598.map.gz | 9.7 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-4598-v30.xml emd-4598.xml | 26.1 KB 26.1 KB | 表示 表示 | EMDBヘッダ |
画像 | emd_4598.png | 129.8 KB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-4598 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-4598 | HTTPS FTP |
-検証レポート
文書・要旨 | emd_4598_validation.pdf.gz | 207.1 KB | 表示 | EMDB検証レポート |
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文書・詳細版 | emd_4598_full_validation.pdf.gz | 206.2 KB | 表示 | |
XML形式データ | emd_4598_validation.xml.gz | 6.6 KB | 表示 | |
アーカイブディレクトリ | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-4598 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-4598 | 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_4598.map.gz / 形式: CCP4 / 大きさ: 147.3 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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投影像・断面図 | 画像のコントロール
画像は Spider により作成 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 0.83 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 : Rhodopsin-Gi complex bound with antibody fragment Fab16
+超分子 #1: Rhodopsin-Gi complex bound with antibody fragment Fab16
+超分子 #2: Guanine nucleotide-binding protein alpha subunit
+超分子 #3: Guanine nucleotide-binding protein beta/gamma subunit
+超分子 #4: antibody FAB fragment Fab16
+超分子 #5: Rhodopsin
+分子 #1: Guanine nucleotide-binding protein G(i) subunit alpha-1
+分子 #2: Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1
+分子 #3: Guanine nucleotide-binding protein G(T) subunit gamma-T1
+分子 #4: Fab antibody fragment light chain
+分子 #5: Fab antibody fragment heavy chain
+分子 #6: Rhodopsin
+分子 #8: RETINAL
-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
濃度 | 0.2 mg/mL | |||||||||
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緩衝液 | pH: 7.5 構成要素:
詳細: The detergent lauryl-maltose neopentyl glycol (LMNG) was used before the last purification step by gel filtration. In the gel filtration, detergent-free buffer was used. | |||||||||
グリッド | 材質: COPPER / メッシュ: 300 / 支持フィルム - 材質: CARBON / 支持フィルム - トポロジー: LACEY / 前処理 - タイプ: GLOW DISCHARGE / 前処理 - 雰囲気: AIR | |||||||||
凍結 | 凍結剤: ETHANE / チャンバー内湿度: 90 % / チャンバー内温度: 295 K / 装置: FEI VITROBOT MARK IV | |||||||||
詳細 | The sample was monodisperse. |
-電子顕微鏡法
顕微鏡 | FEI TITAN KRIOS |
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温度 | 最低: 70.0 K / 最高: 93.0 K |
特殊光学系 | エネルギーフィルター - 名称: GIF Quantum LS / エネルギーフィルター - スリット幅: 20 eV |
撮影 | フィルム・検出器のモデル: GATAN K2 SUMMIT (4k x 4k) 検出モード: SUPER-RESOLUTION / デジタル化 - サイズ - 横: 7676 pixel / デジタル化 - サイズ - 縦: 7420 pixel / デジタル化 - サンプリング間隔: 5.0 µm / デジタル化 - 画像ごとのフレーム数: 1-40 / 撮影したグリッド数: 1 / 実像数: 3200 / 平均露光時間: 10.0 sec. / 平均電子線量: 60.0 e/Å2 |
電子線 | 加速電圧: 300 kV / 電子線源: FIELD EMISSION GUN |
電子光学系 | C2レンズ絞り径: 100.0 µm / 最大 デフォーカス(補正後): 25.0 µm / 最小 デフォーカス(補正後): 15.0 µm / 倍率(補正後): 165000 / 照射モード: FLOOD BEAM / 撮影モード: BRIGHT FIELD / Cs: 2.7 mm / 最大 デフォーカス(公称値): 25.0 µm / 最小 デフォーカス(公称値): 15.0 µm / 倍率(公称値): 165000 |
試料ステージ | 試料ホルダーモデル: FEI TITAN KRIOS AUTOGRID HOLDER ホルダー冷却材: NITROGEN |
実験機器 | モデル: Titan Krios / 画像提供: FEI Company |