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基本情報
登録情報 | ![]() | |||||||||
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タイトル | Local refinement of AQP1 tetramer (C1; refinement mask included D1 of protein 4.2 and Ankyrin-1 AR1-5) in Class 2 of erythrocyte ankyrin-1 complex | |||||||||
![]() | Main map used for model fitting. Density modified and cropped using phenix.resolve_cryo_em, resampled on fine grid using relion_image_handler. | |||||||||
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機能・相同性 | ![]() nitric oxide transmembrane transporter activity / metanephric descending thin limb development / metanephric proximal straight tubule development / metanephric proximal convoluted tubule segment 2 development / metanephric glomerulus vasculature development / cerebrospinal fluid secretion / lipid digestion / cellular response to salt stress / renal water transport / glycerol transmembrane transporter activity ...nitric oxide transmembrane transporter activity / metanephric descending thin limb development / metanephric proximal straight tubule development / metanephric proximal convoluted tubule segment 2 development / metanephric glomerulus vasculature development / cerebrospinal fluid secretion / lipid digestion / cellular response to salt stress / renal water transport / glycerol transmembrane transporter activity / corticotropin secretion / secretory granule organization / carbon dioxide transmembrane transport / carbon dioxide transmembrane transporter activity / renal water absorption / positive regulation of saliva secretion / Passive transport by Aquaporins / glycerol transmembrane transport / water transmembrane transporter activity / establishment or maintenance of actin cytoskeleton polarity / pancreatic juice secretion / cellular response to mercury ion / lateral ventricle development / potassium ion transmembrane transporter activity / : / intracellular water homeostasis / ammonium transmembrane transport / water transport / water channel activity / transepithelial water transport / glomerular filtration / ankyrin-1 complex / intracellularly cGMP-activated cation channel activity / ammonium channel activity / camera-type eye morphogenesis / fibroblast migration / multicellular organismal-level water homeostasis / cellular homeostasis / cellular hyperosmotic response / hyperosmotic response / renal water homeostasis / cell volume homeostasis / positive regulation of fibroblast migration / odontogenesis / nitric oxide transport / cGMP-mediated signaling / potassium channel activity / brush border / transmembrane transporter activity / cellular response to nitric oxide / cellular response to retinoic acid / cellular response to cAMP / sensory perception of pain / cellular response to copper ion / ephrin receptor binding / cellular response to dexamethasone stimulus / basal plasma membrane / establishment of localization in cell / brush border membrane / wound healing / carbon dioxide transport / potassium ion transport / negative regulation of cysteine-type endopeptidase activity involved in apoptotic process / Erythrocytes take up oxygen and release carbon dioxide / Erythrocytes take up carbon dioxide and release oxygen / sarcolemma / Vasopressin regulates renal water homeostasis via Aquaporins / cellular response to hydrogen peroxide / cellular response to mechanical stimulus / positive regulation of angiogenesis / cellular response to UV / positive regulation of fibroblast proliferation / apical part of cell / cellular response to hypoxia / basolateral plasma membrane / nuclear membrane / defense response to Gram-negative bacterium / apical plasma membrane / axon / negative regulation of apoptotic process / extracellular exosome / identical protein binding / nucleus / plasma membrane / cytoplasm 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: 3.1 Å | |||||||||
![]() | Vallese F / Kim K / Yen LY / Johnston JD / Noble AJ / Cali T / Clarke OB | |||||||||
資金援助 | 1件
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![]() | ![]() タイトル: Architecture of the human erythrocyte ankyrin-1 complex. 著者: Francesca Vallese / Kookjoo Kim / Laura Y Yen / Jake D Johnston / Alex J Noble / Tito Calì / Oliver Biggs Clarke / ![]() ![]() 要旨: The stability and shape of the erythrocyte membrane is provided by the ankyrin-1 complex, but how it tethers the spectrin-actin cytoskeleton to the lipid bilayer and the nature of its association ...The stability and shape of the erythrocyte membrane is provided by the ankyrin-1 complex, but how it tethers the spectrin-actin cytoskeleton to the lipid bilayer and the nature of its association with the band 3 anion exchanger and the Rhesus glycoproteins remains unknown. Here we present structures of ankyrin-1 complexes purified from human erythrocytes. We reveal the architecture of a core complex of ankyrin-1, the Rhesus proteins RhAG and RhCE, the band 3 anion exchanger, protein 4.2, glycophorin A and glycophorin B. The distinct T-shaped conformation of membrane-bound ankyrin-1 facilitates recognition of RhCE and, unexpectedly, the water channel aquaporin-1. Together, our results uncover the molecular details of ankyrin-1 association with the erythrocyte membrane, and illustrate the mechanism of ankyrin-mediated membrane protein clustering. | |||||||||
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構造の表示
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-EMDBアーカイブ
マップデータ | ![]() | 143.8 MB | ![]() | |
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ヘッダ (付随情報) | ![]() ![]() | 30.5 KB 30.5 KB | 表示 表示 | ![]() |
FSC (解像度算出) | ![]() | 15.9 KB | 表示 | ![]() |
画像 | ![]() | 57.2 KB | ||
その他 | ![]() ![]() ![]() ![]() ![]() ![]() | 666.7 KB 322.1 MB 322.1 MB 328.3 MB 142.6 MB 142.5 MB | ||
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-検証レポート
文書・要旨 | ![]() | 771.3 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 770.9 KB | 表示 | |
XML形式データ | ![]() | 21.6 KB | 表示 | |
CIF形式データ | ![]() | 28.1 KB | 表示 | |
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-関連構造データ
関連構造データ | ![]() 8ct2MC ![]() 7uz3C ![]() 7uzeC ![]() 7uzqC ![]() 7uzsC ![]() 7uzuC ![]() 7uzvC ![]() 7v07C ![]() 7v0kC ![]() 7v0mC ![]() 7v0qC ![]() 7v0sC ![]() 7v0tC ![]() 7v0uC ![]() 7v0xC ![]() 7v0yC ![]() 7v19C ![]() 8crqC ![]() 8crrC ![]() 8crtC ![]() 8cs9C ![]() 8cslC ![]() 8csvC ![]() 8cswC ![]() 8csxC ![]() 8csyC ![]() 8ct3C ![]() 8cteC C: 同じ文献を引用 ( M: このマップから作成された原子モデル |
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類似構造データ | 類似検索 - 機能・相同性 ![]() |
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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 | Main map used for model fitting. Density modified and cropped using phenix.resolve_cryo_em, resampled on fine grid using relion_image_handler. | ||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 0.415 Å | ||||||||||||||||||||
密度 |
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対称性 | 空間群: 1 | ||||||||||||||||||||
詳細 | EMDB XML:
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-添付データ
-追加マップ: Mask used for FSC calculation.
ファイル | emd_26978_additional_1.map | ||||||||||||
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注釈 | Mask used for FSC calculation. | ||||||||||||
投影像・断面図 |
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密度ヒストグラム |
-追加マップ: Half map 1 (unmodified).
ファイル | emd_26978_additional_2.map | ||||||||||||
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注釈 | Half map 1 (unmodified). | ||||||||||||
投影像・断面図 |
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密度ヒストグラム |
-追加マップ: Half map 2 (unmodified).
ファイル | emd_26978_additional_3.map | ||||||||||||
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注釈 | Half map 2 (unmodified). | ||||||||||||
投影像・断面図 |
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密度ヒストグラム |
-追加マップ: B-factor sharpened map.
ファイル | emd_26978_additional_4.map | ||||||||||||
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注釈 | B-factor sharpened map. | ||||||||||||
投影像・断面図 |
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密度ヒストグラム |
-ハーフマップ: Half map 1 (cropped and resampled to match main map).
ファイル | emd_26978_half_map_1.map | ||||||||||||
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注釈 | Half map 1 (cropped and resampled to match main map). | ||||||||||||
投影像・断面図 |
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密度ヒストグラム |
-ハーフマップ: Half map 2 (cropped and resampled to match main map).
ファイル | emd_26978_half_map_2.map | ||||||||||||
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注釈 | Half map 2 (cropped and resampled to match main map). | ||||||||||||
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 : Class 1 of erythrocyte ankyrin complex (composite map)
全体 | 名称: Class 1 of erythrocyte ankyrin complex (composite map) |
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要素 |
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-超分子 #1: Class 1 of erythrocyte ankyrin complex (composite map)
超分子 | 名称: Class 1 of erythrocyte ankyrin complex (composite map) タイプ: complex / キメラ: Yes / ID: 1 / 親要素: 0 / 含まれる分子: #1 |
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由来(天然) | 生物種: ![]() |
-分子 #1: Aquaporin-1
分子 | 名称: Aquaporin-1 / タイプ: protein_or_peptide / ID: 1 / コピー数: 4 / 光学異性体: LEVO |
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由来(天然) | 生物種: ![]() |
分子量 | 理論値: 28.78832 KDa |
配列 | 文字列: MASEFKKKLF WRAVVAEFLA TTLFVFISIG SALGFKYPVG NNQTAVQDNV KVSLAFGLSI ATLAQSVGHI SGAHLNPAVT LGLLLS(P1L)QI SIFRALMYII AQCVGAIVAT AILSGITSSL TGNSLGRNDL ADGVNSGQGL GIEIIGTLQL VLCVLAT TD ...文字列: MASEFKKKLF WRAVVAEFLA TTLFVFISIG SALGFKYPVG NNQTAVQDNV KVSLAFGLSI ATLAQSVGHI SGAHLNPAVT LGLLLS(P1L)QI SIFRALMYII AQCVGAIVAT AILSGITSSL TGNSLGRNDL ADGVNSGQGL GIEIIGTLQL VLCVLAT TD RRRRDLGGSA PLAIGLSVAL GHLLAIDYTG CGINPARSFG SAVITHNFSN HWIFWVGPFI GGALAVLIYD FILAPRSS D LTDRVKVWTS GQVEEYDLDA DDINSRVEMK PK |
-分子 #2: CHOLESTEROL
分子 | 名称: CHOLESTEROL / タイプ: ligand / ID: 2 / コピー数: 4 / 式: CLR |
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分子量 | 理論値: 386.654 Da |
Chemical component information | ![]() ChemComp-CLR: |
-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 | 8 mg/mL |
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緩衝液 | pH: 7.4 詳細: Final gel filtration buffer contained 0.05% w/v digitonin, 130 mM KCl, 20 mM HEPES, pH 7.4, 1 mM ATP, 1 mM MgCl2, 1 mM PMSF. Peak fractions were concentrated to 8 mg/mL, and 0.01% w/v ...詳細: Final gel filtration buffer contained 0.05% w/v digitonin, 130 mM KCl, 20 mM HEPES, pH 7.4, 1 mM ATP, 1 mM MgCl2, 1 mM PMSF. Peak fractions were concentrated to 8 mg/mL, and 0.01% w/v glycyrrhizic acid was added immediately prior to vitrification. |
凍結 | 凍結剤: ETHANE / チャンバー内湿度: 100 % / チャンバー内温度: 277 K / 装置: FEI VITROBOT MARK IV / 詳細: 4-6 seconds, wait time 30 seconds. |
詳細 | Ankyrin complex mixture purified from digitonin-solubilized erythrocyte ghost membranes |
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電子顕微鏡法
顕微鏡 | FEI TITAN KRIOS |
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特殊光学系 | エネルギーフィルター - 名称: GIF Bioquantum / 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 K3 (6k x 4k) / 撮影したグリッド数: 2 / 実像数: 14464 / 平均露光時間: 2.5 sec. / 平均電子線量: 58.0 e/Å2 / 詳細: Two grids were imaged in a single session. |
電子線 | 加速電圧: 300 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: 2.7 mm / 最大 デフォーカス(公称値): 1.5 µm / 最小 デフォーカス(公称値): 0.5 µm |
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 |