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データを開く
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基本情報
登録情報 | データベース: PDB / ID: 1h7i | ||||||
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タイトル | Apolipoprotein E3 22kD fragment LYS146GLN mutant | ||||||
![]() | APOLIPOPROTEIN E | ||||||
![]() | LIPID BINDING PROTEIN / LIPID TRANSPORT / HEPARIN-BINDING / PLASMA | ||||||
機能・相同性 | ![]() lipid transport involved in lipid storage / intermediate-density lipoprotein particle clearance / positive regulation of lipid transport across blood-brain barrier / regulation of cellular response to very-low-density lipoprotein particle stimulus / metal chelating activity / triglyceride-rich lipoprotein particle clearance / discoidal high-density lipoprotein particle / lipoprotein particle / negative regulation of triglyceride metabolic process / negative regulation of cholesterol biosynthetic process ...lipid transport involved in lipid storage / intermediate-density lipoprotein particle clearance / positive regulation of lipid transport across blood-brain barrier / regulation of cellular response to very-low-density lipoprotein particle stimulus / metal chelating activity / triglyceride-rich lipoprotein particle clearance / discoidal high-density lipoprotein particle / lipoprotein particle / negative regulation of triglyceride metabolic process / negative regulation of cholesterol biosynthetic process / regulation of amyloid-beta clearance / maintenance of location in cell / positive regulation of lipoprotein transport / Transcriptional regulation by the AP-2 (TFAP2) family of transcription factors / chylomicron remnant clearance / chylomicron remnant / intermediate-density lipoprotein particle / acylglycerol homeostasis / NMDA glutamate receptor clustering / very-low-density lipoprotein particle remodeling / phosphatidylcholine-sterol O-acyltransferase activator activity / response to caloric restriction / Chylomicron clearance / positive regulation of phospholipid efflux / very-low-density lipoprotein particle clearance / Chylomicron remodeling / lipid transporter activity / cellular response to lipoprotein particle stimulus / positive regulation of low-density lipoprotein particle receptor catabolic process / regulation of amyloid fibril formation / Chylomicron assembly / high-density lipoprotein particle clearance / chylomicron / phospholipid efflux / regulation of protein metabolic process / very-low-density lipoprotein particle receptor binding / high-density lipoprotein particle remodeling / lipoprotein catabolic process / AMPA glutamate receptor clustering / melanosome organization / positive regulation of cholesterol metabolic process / multivesicular body, internal vesicle / regulation of behavioral fear response / reverse cholesterol transport / positive regulation of amyloid-beta clearance / host-mediated activation of viral process / high-density lipoprotein particle assembly / low-density lipoprotein particle / lipoprotein biosynthetic process / cholesterol transfer activity / high-density lipoprotein particle / protein import / very-low-density lipoprotein particle / cholesterol catabolic process / low-density lipoprotein particle remodeling / heparan sulfate proteoglycan binding / amyloid precursor protein metabolic process / negative regulation of amyloid fibril formation / regulation of amyloid precursor protein catabolic process / positive regulation of membrane protein ectodomain proteolysis / regulation of Cdc42 protein signal transduction / synaptic transmission, cholinergic / HDL remodeling / negative regulation of endothelial cell migration / cholesterol efflux / regulation of cholesterol metabolic process / negative regulation of protein metabolic process / regulation of axon extension / triglyceride homeostasis / artery morphogenesis / Scavenging by Class A Receptors / triglyceride metabolic process / low-density lipoprotein particle receptor binding / positive regulation of amyloid fibril formation / regulation of innate immune response / virion assembly / positive regulation of dendritic spine development / negative regulation of endothelial cell proliferation / negative regulation of amyloid-beta formation / locomotory exploration behavior / antioxidant activity / response to dietary excess / lipoprotein particle binding / negative regulation of MAP kinase activity / negative regulation of blood vessel endothelial cell migration / positive regulation of endocytosis / negative regulation of long-term synaptic potentiation / negative regulation of platelet activation / positive regulation of dendritic spine maintenance / negative regulation of blood coagulation / positive regulation of cholesterol efflux / regulation of neuronal synaptic plasticity / long-term memory / negative regulation of protein secretion / fatty acid homeostasis / long-chain fatty acid transport / synaptic cleft / regulation of protein-containing complex assembly / intracellular transport / positive regulation of lipid biosynthetic process 類似検索 - 分子機能 | ||||||
生物種 | ![]() | ||||||
手法 | ![]() ![]() | ||||||
![]() | Rupp, B. / Peters-Libeu, C. / Verderame, J. | ||||||
![]() | ![]() タイトル: Apolipoprotein E3 22Kd Fragment Lys146Gln Mutant 著者: Rupp, B. / Peters-Libeu, C. / Verderame, J. | ||||||
履歴 |
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構造の表示
構造ビューア | 分子: ![]() ![]() |
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ダウンロードとリンク
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ダウンロード
PDBx/mmCIF形式 | ![]() | 46.6 KB | 表示 | ![]() |
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PDB形式 | ![]() | 32.2 KB | 表示 | ![]() |
PDBx/mmJSON形式 | ![]() | ツリー表示 | ![]() | |
その他 | ![]() |
-検証レポート
文書・要旨 | ![]() | 415.8 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 418.8 KB | 表示 | |
XML形式データ | ![]() | 9.4 KB | 表示 | |
CIF形式データ | ![]() | 12.8 KB | 表示 | |
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-関連構造データ
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リンク
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集合体
登録構造単位 | ![]()
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単位格子 |
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詳細 | THE FULL PROTEIN CONTAINING THE N-TERMINAL 22KD LDLRECEPTOR BINDING DOMAIN (1-191) AND THE C-TERMINAL 10KDLIPID BINDING DOMAIN (192-299) FORMS A TETRAMER IN VIVO |
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要素
#1: タンパク質 | 分子量: 22161.031 Da / 分子数: 1 / 断片: RECEPTOR BINDING DOMAIN, RESIDUES 1-191 / 変異: YES / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() ![]() ![]() |
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#2: 水 | ChemComp-HOH / |
構成要素の詳細 | MUTATION:LYS146GLN APO-E MEDIATES BINDING, INTERNALIZATION, AND CATABOLISM OF LIPOPROTEIN PARTICLES. ...MUTATION:LYS146GLN APO-E MEDIATES BINDING, INTERNALIZ |
-実験情報
-実験
実験 | 手法: ![]() |
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試料調製
結晶 | マシュー密度: 2.19 Å3/Da / 溶媒含有率: 43.9 % |
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結晶化 | pH: 5.6 詳細: 50MM NA-CACODYLATE, PH 5.6, 20-25% PEG 400, 1% 2-ME. RT. ORTHORHOMBIC FORM ORTHO-2 APPEARS (SEE PDB ENTRY 1OR2). |
-データ収集
回折 | 平均測定温度: 120 K |
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放射光源 | 由来: ![]() |
検出器 | タイプ: ADSC ADSC MULTIWIRE / 日付: 1995年3月15日 / 詳細: COLLIMATOR 0.5 MM |
放射 | モノクロメーター: GRAPHITE / プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray |
放射波長 | 波長: 1.54178 Å / 相対比: 1 |
反射 | 解像度: 1.9→20 Å / Num. obs: 14706 / % possible obs: 98 % / 冗長度: 3.3 % / Rmerge(I) obs: 0.0413 / Net I/σ(I): 22.4 |
反射 シェル | 解像度: 1.9→1.95 Å / 冗長度: 3.1 % / Rmerge(I) obs: 0.247 / Mean I/σ(I) obs: 2 / % possible all: 96.6 |
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解析
ソフトウェア |
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精密化 | 構造決定の手法: ![]() 開始モデル: 1BZ4 解像度: 1.9→20 Å / Cor.coef. Fo:Fc: 0.95 / Cor.coef. Fo:Fc free: 0.915 / SU B: 4.224 / SU ML: 0.123 / 交差検証法: THROUGHOUT / ESU R: 0.162 / ESU R Free: 0.158 / 立体化学のターゲット値: MAXIMUM LIKELIHOOD 詳細: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. RESIDUES 1-22 AND 163-191 ARE ABSENT IN MODEL AND IN ELECTRON DENSITY. THE N- AND C-TERMINI ARE DISORDERED IN APOE 22KD FRAGMENTS. THE N- ...詳細: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. RESIDUES 1-22 AND 163-191 ARE ABSENT IN MODEL AND IN ELECTRON DENSITY. THE N- AND C-TERMINI ARE DISORDERED IN APOE 22KD FRAGMENTS. THE N-TERMINAL MAIN CHAIN LIKELY SPLITS AT RESIDUE 22 AND SOME PARTIALLY OCCUPIED SOLVENT MOLECULES IN CLOSE PROXIMITY MAY IN FACT BE POORLY LOCALIZED FRAGMENTS OF THE ABSENT TERMINII. LOOP REGION 82-89 IS COMMONLY DISORDERED IN APOE MODELS. DENSITY IS POOR AND THE LOOP BACKBONE WAS MODELLED AFTER 1BZ4 AND IS LIKELY PRESENT IN MULTIPLE CONFORMATIONS. THE AUTHORS CAUTION THAT A NUMBER OF LOOP SIDE CHAIN ATOMS HAVE EXCESSIVE B-FACTORS >100 AND ARE PROBABLY NOT LOCALISED AT ALL. THE MOLECULE IS GENERALLY VERY FLEXIBLE IN THE LOOP DOMAIN AND HAS OVERALL HIGH B VALUES IN MOST MODELS. SEE SEGELKE ET AL PROT SCI 9:886-897 (2000) FOR THE BIOLOGICAL RELEVANCE OF FLEXIBILITY IN LIPID BINDING.
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溶媒の処理 | イオンプローブ半径: 0.8 Å / 減衰半径: 0.8 Å / VDWプローブ半径: 1.4 Å / 溶媒モデル: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
精密化ステップ | サイクル: LAST / 解像度: 1.9→20 Å
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拘束条件 |
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