+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-2504 | |||||||||
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タイトル | Septin-Gic1-Cdc42-GppNHp complex in a single-tilt-axis subtomogram | |||||||||
マップデータ | Cryo-Tomogram of Septin/Gic1/Cdc42-GppNHp Complex. | |||||||||
試料 |
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キーワード | cell division (細胞分裂) / bud neck filaments / cytokinesis (細胞質分裂) / cytoskeleton (細胞骨格) / electron tomography / septin (セプチン) / gic / cdc42 | |||||||||
機能・相同性 | 機能・相同性情報 septin ring organization / GBD domain binding / submandibular salivary gland formation / actin filament branching / Golgi transport complex / positive regulation of pinocytosis / modification of synaptic structure / endothelin receptor signaling pathway involved in heart process / Cdc42 protein signal transduction / cardiac neural crest cell migration involved in outflow tract morphogenesis ...septin ring organization / GBD domain binding / submandibular salivary gland formation / actin filament branching / Golgi transport complex / positive regulation of pinocytosis / modification of synaptic structure / endothelin receptor signaling pathway involved in heart process / Cdc42 protein signal transduction / cardiac neural crest cell migration involved in outflow tract morphogenesis / positive regulation of synapse structural plasticity / dendritic cell migration / storage vacuole / positive regulation of epithelial cell proliferation involved in lung morphogenesis / incipient cellular bud site / apolipoprotein A-I receptor binding / neuron fate determination / cellular bud tip / modulation by host of viral process / organelle transport along microtubule / regulation of attachment of spindle microtubules to kinetochore / positive regulation of pseudopodium assembly / Inactivation of CDC42 and RAC1 / cardiac conduction system development / regulation of exit from mitosis / GTP-dependent protein binding / regulation of filopodium assembly / establishment of Golgi localization / leading edge membrane / neuropilin signaling pathway / positive regulation of intracellular protein transport / cellular bud neck / cell junction assembly / filopodium assembly / mating projection tip / establishment of epithelial cell apical/basal polarity / regulation of modification of postsynaptic structure / mitogen-activated protein kinase kinase kinase binding / embryonic heart tube development / dendritic spine morphogenesis / thioesterase binding / regulation of stress fiber assembly / RHO GTPases activate KTN1 / regulation of lamellipodium assembly / nuclear migration / DCC mediated attractive signaling / adherens junction organization / 血管新生 / Wnt signaling pathway, planar cell polarity pathway / CD28 dependent Vav1 pathway / regulation of postsynapse organization / positive regulation of filopodium assembly / regulation of mitotic nuclear division / phagocytosis, engulfment / RHOV GTPase cycle / establishment or maintenance of cell polarity / establishment of cell polarity / heart contraction / Myogenesis / RHOJ GTPase cycle / Golgi organization / RHOQ GTPase cycle / positive regulation of cytokinesis / RHO GTPases activate PAKs / CDC42 GTPase cycle / RHOU GTPase cycle / macrophage differentiation / RHOG GTPase cycle / RHO GTPases Activate WASPs and WAVEs / RHO GTPases activate IQGAPs / RAC2 GTPase cycle / RAC3 GTPase cycle / spindle midzone / negative regulation of protein-containing complex assembly / positive regulation of lamellipodium assembly / phagocytic vesicle / positive regulation of substrate adhesion-dependent cell spreading / positive regulation of stress fiber assembly / GPVI-mediated activation cascade / EPHB-mediated forward signaling / RAC1 GTPase cycle / substantia nigra development / Gene and protein expression by JAK-STAT signaling after Interleukin-12 stimulation / 低分子量GTPアーゼ / G protein activity / positive regulation of DNA replication / 分泌 / filopodium / actin filament organization / integrin-mediated signaling pathway / RHO GTPases Activate Formins / regulation of actin cytoskeleton organization / FCGR3A-mediated phagocytosis / EGFR downregulation / positive regulation of JNK cascade / MAPK6/MAPK4 signaling / Schaffer collateral - CA1 synapse / protein localization / G beta:gamma signalling through CDC42 / cytoplasmic ribonucleoprotein granule 類似検索 - 分子機能 | |||||||||
生物種 | Saccharomyces cerevisiae (パン酵母) / Homo sapiens (ヒト) | |||||||||
手法 | 電子線トモグラフィー法 / クライオ電子顕微鏡法 / 解像度: 60.0 Å | |||||||||
データ登録者 | Sadian Y / Gatsogiannis C / Patasi C / Hofnagel O / Goody RS / Farkasovsky M / Raunser S | |||||||||
引用 | ジャーナル: Elife / 年: 2013 タイトル: The role of Cdc42 and Gic1 in the regulation of septin filament formation and dissociation. 著者: Yashar Sadian / Christos Gatsogiannis / Csilla Patasi / Oliver Hofnagel / Roger S Goody / Marian Farkasovský / Stefan Raunser / 要旨: Septins are guanine nucleotide-binding proteins that polymerize into filamentous and higher-order structures. Cdc42 and its effector Gic1 are involved in septin recruitment, ring formation and ...Septins are guanine nucleotide-binding proteins that polymerize into filamentous and higher-order structures. Cdc42 and its effector Gic1 are involved in septin recruitment, ring formation and dissociation. The regulatory mechanisms behind these processes are not well understood. Here, we have used electron microscopy and cryo electron tomography to elucidate the structural basis of the Gic1-septin and Gic1-Cdc42-septin interaction. We show that Gic1 acts as a scaffolding protein for septin filaments forming long and flexible filament cables. Cdc42 in its GTP-form binds to Gic1, which ultimately leads to the dissociation of Gic1 from the filament cables. Surprisingly, Cdc42-GDP is not inactive, but in the absence of Gic1 directly interacts with septin filaments resulting in their disassembly. We suggest that this unanticipated dual function of Cdc42 is crucial for the cell cycle. Based on our results we propose a novel regulatory mechanism for septin filament formation and dissociation. DOI: http://dx.doi.org/10.7554/eLife.01085.001. | |||||||||
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_2504.map.gz | 11.1 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-2504-v30.xml emd-2504.xml | 10.6 KB 10.6 KB | 表示 表示 | EMDBヘッダ |
画像 | emd_2504.jpg | 1.7 MB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-2504 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-2504 | HTTPS FTP |
-関連構造データ
関連構造データ | 2505C C: 同じ文献を引用 (文献) |
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類似構造データ | 類似検索 - 機能・相同性F&H 検索 |
-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_2504.map.gz / 形式: CCP4 / 大きさ: 13.2 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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注釈 | Cryo-Tomogram of Septin/Gic1/Cdc42-GppNHp Complex. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 7.2 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 : Septin-Gic1-Cdc42-GppNHp complex
全体 | 名称: Septin-Gic1-Cdc42-GppNHp complex |
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要素 |
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-超分子 #1000: Septin-Gic1-Cdc42-GppNHp complex
超分子 | 名称: Septin-Gic1-Cdc42-GppNHp complex / タイプ: sample / ID: 1000 / Number unique components: 3 |
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-分子 #1: Septin
分子 | 名称: Septin / タイプ: protein_or_peptide / ID: 1 / 組換発現: Yes |
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由来(天然) | 生物種: Saccharomyces cerevisiae (パン酵母) / 株: FMY1027 / 別称: Yeast |
組換発現 | 生物種: Escherichia coli (大腸菌) |
配列 | InterPro: セプチン |
-分子 #2: Cell division control protein 42 homolog
分子 | 名称: Cell division control protein 42 homolog / タイプ: protein_or_peptide / ID: 2 / Name.synonym: Cdc42 / 組換発現: Yes / データベース: NCBI |
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由来(天然) | 生物種: Homo sapiens (ヒト) / 別称: Human |
配列 | UniProtKB: Cell division control protein 42 homolog |
-分子 #3: Gic1
分子 | 名称: Gic1 / タイプ: protein_or_peptide / ID: 3 / 組換発現: Yes |
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由来(天然) | 生物種: Saccharomyces cerevisiae (パン酵母) / 株: FMY1027 / 別称: Yeast |
組換発現 | 生物種: Escherichia coli (大腸菌) |
配列 | UniProtKB: GTPase-interacting component 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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解析 | 電子線トモグラフィー法 |
試料の集合状態 | filament |
-試料調製
緩衝液 | pH: 7.5 / 詳細: 100 mM NaCl, 20 mM mM Tris-HCl, 1 mM DTT |
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グリッド | 詳細: 400 Mesh 2/1 C-flat holey carbon grids |
凍結 | 凍結剤: ETHANE / チャンバー内湿度: 90 % / チャンバー内温度: 100 K / 装置: GATAN CRYOPLUNGE 3 |
-電子顕微鏡法
顕微鏡 | JEOL 3200FSC |
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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): 85470 / 照射モード: FLOOD BEAM / 撮影モード: BRIGHT FIELDBright-field microscopy / Cs: 4.1 mm / 倍率(公称値): 40000 |
特殊光学系 | エネルギーフィルター - 名称: in-column Omega 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 |
試料ステージ | 試料ホルダーモデル: JEOL 3200FSC CRYOHOLDER / Tilt series - Axis1 - Min angle: -60 ° / Tilt series - Axis1 - Max angle: 60 ° / Tilt series - Axis1 - Angle increment: 2 ° |
日付 | 2011年7月8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: 61 / 平均電子線量: 65 e/Å2 |
-画像解析
最終 再構成 | アルゴリズム: OTHER / 解像度のタイプ: BY AUTHOR / 解像度: 60.0 Å / 解像度の算出法: OTHER / ソフトウェア - 名称: Imod / 使用した粒子像数: 61 |
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詳細 | Standard eTOMO procedures for single axis tilt tomograms |