+
データを開く
-
基本情報
登録情報 | データベース: EMDB / ID: EMD-9090 | |||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
タイトル | Single-Molecule 3D Image of Human Plasma Intermediate-Density Lipoprotein in Complex with Monoclonal Antibody MAB012 (No. 06) | |||||||||||||||
![]() | Human Plasma Intermediate-Density Lipoprotein in Complex with Monoclonal Antibody MAB012 (No. 06) | |||||||||||||||
![]() |
| |||||||||||||||
生物種 | ![]() ![]() ![]() | |||||||||||||||
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: 58.1 Å | |||||||||||||||
![]() | Lei D / Yu Y / Kuang Y / Krauss R / Ren G | |||||||||||||||
資金援助 | ![]()
| |||||||||||||||
![]() | ![]() タイトル: Single-molecule 3D imaging of human plasma intermediate-density lipoproteins reveals a polyhedral structure. 著者: Dongsheng Lei / Yadong Yu / Yu-Lin Kuang / Jianfang Liu / Ronald M Krauss / Gang Ren / ![]() 要旨: Intermediate-density lipoproteins (IDLs), the remnants of very-low-density lipoproteins via lipolysis, are rich in cholesteryl ester and are associated with cardiovascular disease. Despite ...Intermediate-density lipoproteins (IDLs), the remnants of very-low-density lipoproteins via lipolysis, are rich in cholesteryl ester and are associated with cardiovascular disease. Despite pharmacological interest in IDLs, their three-dimensional (3D) structure is still undetermined due to their variation in size, composition, and dynamic structure. To explore the 3D structure of IDLs, we reconstructed 3D density maps from individual IDL particles using cryo-electron microscopy (cryo-EM) and individual-particle electron tomography (IPET, without averaging from different molecules). 3D reconstructions of IDLs revealed an unexpected polyhedral structure that deviates from the generally assumed spherical shape model (Frias et al., 2007; Olson, 1998; Shen et al., 1977). The polyhedral-shaped IDL contains a high-density shell formed by flat surfaces that are similar to those of very-low-density lipoproteins but have sharper dihedral angles between nearby surfaces. These flat surfaces would be less hydrophobic than the curved surface of mature spherical high-density lipoprotein (HDL), leading to a lower binding affinity of IDL to hydrophobic proteins (such as cholesteryl ester transfer protein) than HDL. This is the first visualization of the IDL 3D structure, which could provide fundamental clues for delineating the role of IDL in lipid metabolism and cardiovascular disease. | |||||||||||||||
履歴 |
|
-
構造の表示
ムービー |
![]() |
---|---|
構造ビューア | EMマップ: ![]() ![]() ![]() |
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 | ![]() | 24.8 MB | ![]() | |
---|---|---|---|---|
ヘッダ (付随情報) | ![]() ![]() | 11.4 KB 11.4 KB | 表示 表示 | ![]() |
FSC (解像度算出) | ![]() | 6.8 KB | 表示 | ![]() |
画像 | ![]() | 16.9 KB | ||
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-検証レポート
文書・要旨 | ![]() | 78.5 KB | 表示 | ![]() |
---|---|---|---|---|
文書・詳細版 | ![]() | 77.7 KB | 表示 | |
XML形式データ | ![]() | 493 B | 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 | ![]() 9069C ![]() 9070C ![]() 9071C ![]() 9072C ![]() 9073C ![]() 9074C ![]() 9075C ![]() 9076C ![]() 9077C ![]() 9078C ![]() 9079C ![]() 9080C ![]() 9081C ![]() 9082C ![]() 9083C ![]() 9084C ![]() 9085C ![]() 9086C ![]() 9087C ![]() 9088C ![]() 9089C ![]() 9091C ![]() 9092C ![]() 9093C ![]() 9094C ![]() 9095C ![]() 9096C ![]() 9097C ![]() 9098C ![]() 9099C C: 同じ文献を引用 ( |
---|---|
類似構造データ |
-
リンク
EMDBのページ | ![]() ![]() |
---|
-
マップ
ファイル | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
注釈 | Human Plasma Intermediate-Density Lipoprotein in Complex with Monoclonal Antibody MAB012 (No. 06) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 3.7 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
密度 |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
対称性 | 空間群: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
詳細 | EMDB XML:
CCP4マップ ヘッダ情報:
|
-添付データ
-
試料の構成要素
-全体 : Human plasma intermediate-density lipoprotein in complex with mon...
全体 | 名称: Human plasma intermediate-density lipoprotein in complex with monoclonal antibody mAB012 |
---|---|
要素 |
|
-超分子 #1: Human plasma intermediate-density lipoprotein in complex with mon...
超分子 | 名称: Human plasma intermediate-density lipoprotein in complex with monoclonal antibody mAB012 タイプ: complex / ID: 1 / 親要素: 0 詳細: Human intermediate-density lipoproteins (IDLs) were isolated from the plasma of a healthy individual by density gradient ultracentrifugation. Mouse monoclonal antibody mAB012, whose epitope ...詳細: Human intermediate-density lipoproteins (IDLs) were isolated from the plasma of a healthy individual by density gradient ultracentrifugation. Mouse monoclonal antibody mAB012, whose epitope located within the first 20 N-terminal residues of human apoB-100, was purchased from EMD Millipore. The antigen-antibody complex was prepared by incubating IDLs and mAB012 in a molar ratio of 1:2.3 at 4 degC overnight. |
---|
-超分子 #2: Human plasma intermediate-density lipoprotein
超分子 | 名称: Human plasma intermediate-density lipoprotein / タイプ: complex / ID: 2 / 親要素: 1 詳細: Human intermediate-density lipoproteins (IDLs) were isolated from the plasma of a healthy individual by density gradient ultracentrifugation. |
---|---|
由来(天然) | 生物種: ![]() |
-超分子 #3: Monoclonal IgG antibody mAB012
超分子 | 名称: Monoclonal IgG antibody mAB012 / タイプ: complex / ID: 3 / 親要素: 1 詳細: Mouse monoclonal antibody mAB012, whose epitope located within the first 20 N-terminal residues of human apoB-100, was purchased from EMD Millipore. |
---|---|
由来(天然) | 生物種: ![]() ![]() |
組換発現 | 生物種: ![]() ![]() |
-実験情報
-構造解析
手法 | クライオ電子顕微鏡法 |
---|---|
![]() | 電子線トモグラフィー法 |
試料の集合状態 | particle |
-
試料調製
緩衝液 | pH: 7 / 詳細: Dulbecco's phosphate buffered saline (DPBS) |
---|---|
グリッド | モデル: Homemade / 材質: COPPER / メッシュ: 200 / 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: 80 % / 装置: LEICA EM GP |
詳細 | Human intermediate-density lipoproteins (IDLs) were isolated from the plasma of a healthy individual by density gradient ultracentrifugation. Mouse monoclonal antibody mAB012, whose epitope is located within the first 20 N-terminal residues of human apoB-100, was purchased from EMD Millipore. The antigen-antibody complex was prepared by incubating IDLs and mAB012 in a molar ratio of 1:2.3 at 4 degrees C overnight. |
切片作成 | その他: NO SECTIONING |
-
電子顕微鏡法
顕微鏡 | FEI TECNAI F20 |
---|---|
撮影 | フィルム・検出器のモデル: GATAN K2 SUMMIT (4k x 4k) 平均電子線量: 1.12 e/Å2 |
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 / 倍率(公称値): 19000 |
実験機器 | ![]() モデル: Tecnai F20 / 画像提供: FEI Company |