+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 1i0u | ||||||
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タイトル | SOLUTION STRUCTURE AND BACKBONE DYNAMICS OF A CONCATEMER OF EGF-HOMOLOGY MODULES OF THE HUMAN LOW DENSITY LIPOPROTEIN RECEPTOR | ||||||
要素 | LOW DENSITY LIPOPROTEIN RECEPTOR | ||||||
キーワード | LIPID BINDING PROTEIN / anti-parallel beta strands / calcium binding sites | ||||||
機能・相同性 | 機能・相同性情報 receptor-mediated endocytosis involved in cholesterol transport / regulation of phosphatidylcholine catabolic process / plasma lipoprotein particle clearance / positive regulation of lysosomal protein catabolic process / very-low-density lipoprotein particle receptor activity / negative regulation of astrocyte activation / negative regulation of microglial cell activation / PCSK9-LDLR complex / cholesterol import / low-density lipoprotein particle clearance ...receptor-mediated endocytosis involved in cholesterol transport / regulation of phosphatidylcholine catabolic process / plasma lipoprotein particle clearance / positive regulation of lysosomal protein catabolic process / very-low-density lipoprotein particle receptor activity / negative regulation of astrocyte activation / negative regulation of microglial cell activation / PCSK9-LDLR complex / cholesterol import / low-density lipoprotein particle clearance / negative regulation of receptor recycling / clathrin heavy chain binding / low-density lipoprotein particle receptor activity / intestinal cholesterol absorption / positive regulation of triglyceride biosynthetic process / negative regulation of low-density lipoprotein particle clearance / low-density lipoprotein particle binding / Chylomicron clearance / response to caloric restriction / amyloid-beta clearance by cellular catabolic process / LDL clearance / regulation of protein metabolic process / high-density lipoprotein particle clearance / lipoprotein catabolic process / phospholipid transport / low-density lipoprotein particle / cholesterol transport / endolysosome membrane / negative regulation of amyloid fibril formation / negative regulation of protein metabolic process / artery morphogenesis / cellular response to fatty acid / regulation of cholesterol metabolic process / amyloid-beta clearance / sorting endosome / lipoprotein particle binding / cellular response to low-density lipoprotein particle stimulus / long-term memory / phagocytosis / Retinoid metabolism and transport / clathrin-coated pit / somatodendritic compartment / cholesterol metabolic process / receptor-mediated endocytosis / cholesterol homeostasis / clathrin-coated endocytic vesicle membrane / lipid metabolic process / positive regulation of inflammatory response / endocytosis / late endosome / Cargo recognition for clathrin-mediated endocytosis / apical part of cell / Clathrin-mediated endocytosis / virus receptor activity / amyloid-beta binding / protease binding / basolateral plasma membrane / molecular adaptor activity / early endosome / receptor complex / lysosome / endosome membrane / external side of plasma membrane / negative regulation of gene expression / calcium ion binding / positive regulation of gene expression / Golgi apparatus / cell surface / identical protein binding / membrane / plasma membrane 類似検索 - 分子機能 | ||||||
生物種 | Homo sapiens (ヒト) | ||||||
手法 | 溶液NMR / 1. Torsion angles dynamics 2. Restrained molecular dynamics with calcium 3. Energy minimisation | ||||||
データ登録者 | Kurniawan, N.D. / Aliabadizadeh, K. / Brereton, I.M. / Kroon, P.A. / Smith, R. | ||||||
引用 | ジャーナル: J.Mol.Biol. / 年: 2001 タイトル: NMR structure and backbone dynamics of a concatemer of epidermal growth factor homology modules of the human low-density lipoprotein receptor. 著者: Kurniawan, N.D. / Aliabadizadeh, K. / Brereton, I.M. / Kroon, P.A. / Smith, R. #1: ジャーナル: Protein Sci. / 年: 2000 タイトル: NMR Structure of a Concatemer of the First and Second Ligand-Binding Modules of the Human Low-Density Lipoprotein Receptor 著者: Kurniawan, N.D. / Atkins, A.R. / Brereton, I.M. / Kroon, P.A. / Smith, R. #2: ジャーナル: J.Mol.Biol. / 年: 1998 タイトル: An extracellular beta-propeller module predicted in lipoprotein and scavenger receptors, tyrosine kinases,epidermal growth factor precursor, and extracellular matrix components. An ...タイトル: An extracellular beta-propeller module predicted in lipoprotein and scavenger receptors, tyrosine kinases,epidermal growth factor precursor, and extracellular matrix components. An extracellular beta-propeller module predicted in lipoprotein and scavenger receptors, tyrosine kinases,epidermal growth factor precursor, and extracellular matrix components 著者: Springer, T.A. | ||||||
履歴 |
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-構造の表示
構造ビューア | 分子: MolmilJmol/JSmol |
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-ダウンロードとリンク
-ダウンロード
PDBx/mmCIF形式 | 1i0u.cif.gz | 32.1 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb1i0u.ent.gz | 24.2 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 1i0u.json.gz | ツリー表示 | PDBx/mmJSON形式 | |
その他 | その他のダウンロード |
-検証レポート
アーカイブディレクトリ | https://data.pdbj.org/pub/pdb/validation_reports/i0/1i0u ftp://data.pdbj.org/pub/pdb/validation_reports/i0/1i0u | HTTPS FTP |
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-関連構造データ
-リンク
-集合体
登録構造単位 |
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1 |
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NMR アンサンブル |
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-要素
#1: タンパク質 | 分子量: 9001.013 Da / 分子数: 1 / 断片: EGF-AB CONCATEMER(RESIDUES 314-395) / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 組織: LIVER / プラスミド: PGEX-4T; PET-30A+ / 発現宿主: Escherichia coli (大腸菌) / 株 (発現宿主): DH5-ALPHA; BL21-DE3 / 参照: UniProt: P01130 |
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#2: 化合物 |
-実験情報
-実験
実験 | 手法: 溶液NMR | ||||||||||||||||||||||||||||
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NMR実験 |
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NMR実験の詳細 | Text: 15N T1, T2, and NOE relaxations to obtain backbone dynamics information T1/T2 data were not used for structure refinement |
-試料調製
詳細 |
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試料状態 |
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結晶化 | *PLUS 手法: other / 詳細: NMR |
-NMR測定
NMRスペクトロメーター | タイプ: Bruker DMX / 製造業者: Bruker / モデル: DMX / 磁場強度: 750 MHz |
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-解析
NMR software |
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精密化 | 手法: 1. Torsion angles dynamics 2. Restrained molecular dynamics with calcium 3. Energy minimisation ソフトェア番号: 1 詳細: The structures are based on: 874 NOE restraints, 64 phi dihedral angles, 14 chi1 dihedral angles, 14 hydrogen bonds, 9 calcium ion ligand restraints | ||||||||||||||||||||||||
NMRアンサンブル | コンフォーマー選択の基準: Energy minimised average structure from 30 selected structure with lowest energy 計算したコンフォーマーの数: 100 / 登録したコンフォーマーの数: 1 |