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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: 5iro | ||||||
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タイトル | Crystal structure of a complex between the Human adenovirus type 4 E3-19K protein and MHC class molecule HLA-A2/TAX | ||||||
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![]() | Immune system/transcription / Ad4 E3-19K-HLA-A2 COMPLEX / IMMUNE EVASION FUNCTION / MHC CLASS I MOLECULE / Immune system-transcription complex | ||||||
機能・相同性 | ![]() symbiont-mediated suppression of host antigen processing and presentation of peptide antigen via MHC class I => GO:0046776 / symbiont-mediated perturbation of host exit from mitosis / symbiont-mediated suppression of host adaptive immune response / symbiont-mediated perturbation of host cell cycle G0/G1 transition checkpoint / T cell mediated cytotoxicity directed against tumor cell target / positive regulation of memory T cell activation / TAP complex binding / positive regulation of CD8-positive, alpha-beta T cell activation / CD8-positive, alpha-beta T cell activation / Golgi medial cisterna ...symbiont-mediated suppression of host antigen processing and presentation of peptide antigen via MHC class I => GO:0046776 / symbiont-mediated perturbation of host exit from mitosis / symbiont-mediated suppression of host adaptive immune response / symbiont-mediated perturbation of host cell cycle G0/G1 transition checkpoint / T cell mediated cytotoxicity directed against tumor cell target / positive regulation of memory T cell activation / TAP complex binding / positive regulation of CD8-positive, alpha-beta T cell activation / CD8-positive, alpha-beta T cell activation / Golgi medial cisterna / positive regulation of CD8-positive, alpha-beta T cell proliferation / CD8 receptor binding / antigen processing and presentation of exogenous peptide antigen via MHC class I / symbiont-mediated perturbation of host cell cycle G1/S transition checkpoint / D-mannose binding / endoplasmic reticulum exit site / antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent / TAP binding / protection from natural killer cell mediated cytotoxicity / beta-2-microglobulin binding / T cell receptor binding / detection of bacterium / regulation of mRNA stability / positive regulation of ferrous iron binding / positive regulation of transferrin receptor binding / positive regulation of receptor binding / early endosome lumen / Nef mediated downregulation of MHC class I complex cell surface expression / DAP12 interactions / negative regulation of receptor binding / antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-independent / antigen processing and presentation of endogenous peptide antigen via MHC class Ib / lumenal side of endoplasmic reticulum membrane / cellular response to iron ion / Endosomal/Vacuolar pathway / Antigen Presentation: Folding, assembly and peptide loading of class I MHC / cellular response to iron(III) ion / antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent / negative regulation of forebrain neuron differentiation / regulation of erythrocyte differentiation / ER to Golgi transport vesicle membrane / peptide antigen assembly with MHC class I protein complex / regulation of iron ion transport / response to molecule of bacterial origin / MHC class I peptide loading complex / HFE-transferrin receptor complex / T cell mediated cytotoxicity / antigen processing and presentation of endogenous peptide antigen via MHC class I / positive regulation of T cell cytokine production / MHC class I protein complex / multicellular organismal-level iron ion homeostasis / negative regulation of neurogenesis / peptide antigen assembly with MHC class II protein complex / positive regulation of receptor-mediated endocytosis / SH3 domain binding / MHC class II protein complex / cellular response to nicotine / positive regulation of T cell mediated cytotoxicity / specific granule lumen / recycling endosome membrane / phagocytic vesicle membrane / positive regulation of cellular senescence / peptide antigen binding / negative regulation of epithelial cell proliferation / antigen processing and presentation of exogenous peptide antigen via MHC class II / Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell / Interferon gamma signaling / positive regulation of immune response / Modulation by Mtb of host immune system / Interferon alpha/beta signaling / positive regulation of type II interferon production / sensory perception of smell / positive regulation of T cell activation / positive regulation of protein binding / tertiary granule lumen / E3 ubiquitin ligases ubiquitinate target proteins / DAP12 signaling / negative regulation of neuron projection development / MHC class II protein complex binding / late endosome membrane / T cell receptor signaling pathway / iron ion transport / ER-Phagosome pathway / early endosome membrane / antibacterial humoral response / T cell differentiation in thymus / protein refolding / cellular response to lipopolysaccharide / protein homotetramerization / intracellular iron ion homeostasis / amyloid fibril formation / host cell cytoplasm / membrane => GO:0016020 / learning or memory / host cell endoplasmic reticulum membrane / defense response to Gram-positive bacterium / immune response / Amyloid fiber formation / endoplasmic reticulum lumen / lysosomal membrane 類似検索 - 分子機能 | ||||||
生物種 | ![]() ![]() ![]() | ||||||
手法 | ![]() ![]() ![]() | ||||||
![]() | Li, L. / Bouvier, M. | ||||||
資金援助 | ![]()
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![]() | ![]() タイトル: Structure of the Adenovirus Type 4 (Species E) E3-19K/HLA-A2 Complex Reveals Species-Specific Features in MHC Class I Recognition. 著者: Li, L. / Santarsiero, B.D. / Bouvier, M. | ||||||
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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 | ![]() | 565.9 KB | 表示 | ![]() |
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PDB形式 | ![]() | 468.7 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 | ![]() | 656.5 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 864 KB | 表示 | |
XML形式データ | ![]() | 109 KB | 表示 | |
CIF形式データ | ![]() | 146.2 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 | Tetramer confirmed by FPLC gel filtration |
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要素
#1: タンパク質 | 分子量: 31854.203 Da / 分子数: 6 / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() ![]() ![]() #2: タンパク質・ペプチド | 分子量: 1070.280 Da / 分子数: 6 / 由来タイプ: 合成 / 詳細: Human T-cell lymphotropic virus type 1, HTLV-1 TAX 由来: (合成) ![]() 参照: UniProt: Q80817, UniProt: P14079*PLUS #3: タンパク質 | 分子量: 11879.356 Da / 分子数: 6 / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() ![]() #4: タンパク質 | 分子量: 12394.115 Da / 分子数: 6 / 由来タイプ: 組換発現 由来: (組換発現) ![]() 遺伝子: E3 発現宿主: ![]() 参照: UniProt: Q8BEL5 #5: 水 | ChemComp-HOH / | |
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-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: 2.99 Å3/Da / 溶媒含有率: 58.9 % / 解説: Tween crystal Size 0.15X0.07X0.05mm |
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結晶化 | 温度: 291 K / 手法: 蒸発脱水法 / pH: 6.5 / 詳細: 1.5M (NH4)2SO4,0.1M Bis-Tris pH6.5, 0.1MNaCI / PH範囲: 6.5 |
-データ収集
回折 | 平均測定温度: 93 K |
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放射光源 | 由来: ![]() ![]() ![]() |
検出器 | タイプ: MARMOSAIC 225 mm CCD / 検出器: CCD / 日付: 2012年9月20日 |
放射 | 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 Å / 相対比: 1 |
Reflection twin | Operator: -h,-k,l / Fraction: 0.47 |
反射 | 解像度: 2.64→100 Å / Num. obs: 110878 / % possible obs: 100 % / Observed criterion σ(I): 1 / 冗長度: 7.9 % / Rmerge(I) obs: 0.17 / Net I/σ(I): 23.4 |
反射 シェル | 解像度: 2.64→2.69 Å / 冗長度: 6.7 % / Rmerge(I) obs: 0.619 / Mean I/σ(I) obs: 2.5 / % possible all: 100 |
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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: HLA-A2 解像度: 2.64→49.625 Å / 交差検証法: THROUGHOUT / σ(F): 2.01 / 位相誤差: 29.91
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溶媒の処理 | 減衰半径: 0.9 Å / VDWプローブ半径: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
精密化ステップ | サイクル: LAST / 解像度: 2.64→49.625 Å
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拘束条件 |
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LS精密化 シェル |
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