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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: 1ao7 | ||||||
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タイトル | COMPLEX BETWEEN HUMAN T-CELL RECEPTOR, VIRAL PEPTIDE (TAX), AND HLA-A 0201 | ||||||
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![]() | COMPLEX (MHC/VIRAL PEPTIDE/RECEPTOR) / CLASS I MHC / T-CELL RECEPTOR / VIRAL PEPTIDE / COMPLEX (MHC-VIRAL PEPTIDE-RECEPTOR / COMPLEX (MHC-VIRAL PEPTIDE-RECEPTOR) COMPLEX | ||||||
機能・相同性 | ![]() symbiont-mediated perturbation of host exit from mitosis / symbiont-mediated perturbation of host cell cycle G0/G1 transition checkpoint / T cell mediated cytotoxicity directed against tumor cell target / T cell receptor complex / 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 ...symbiont-mediated perturbation of host exit from mitosis / symbiont-mediated perturbation of host cell cycle G0/G1 transition checkpoint / T cell mediated cytotoxicity directed against tumor cell target / T cell receptor complex / 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 / 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 / adaptive immune response / amyloid fibril formation / host cell cytoplasm / learning or memory / cell surface receptor signaling pathway / defense response to Gram-positive bacterium / immune response / Amyloid fiber formation / endoplasmic reticulum lumen / lysosomal membrane / external side of plasma membrane / Golgi membrane 類似検索 - 分子機能 | ||||||
生物種 | ![]() ![]() | ||||||
手法 | ![]() ![]() ![]() | ||||||
![]() | Garboczi, D.N. / Ghosh, P. / Utz, U. / Fan, Q.R. / Biddison, W.E. / Wiley, D.C. | ||||||
![]() | ![]() タイトル: Structure of the complex between human T-cell receptor, viral peptide and HLA-A2. 著者: Garboczi, D.N. / Ghosh, P. / Utz, U. / Fan, Q.R. / Biddison, W.E. / Wiley, D.C. #1: ![]() タイトル: Assembly, Specific Binding, and Crystallization of a Human Tcr-Alphabeta with an Antigenic Tax Peptide from Human T Lymphotropic Virus Type 1 and the Class I Mhc Molecule Hla-A2 著者: Garboczi, D.N. / Utz, U. / Ghosh, P. / Seth, A. / Kim, J. / Vantienhoven, E.A. / Biddison, W.E. / Wiley, D.C. | ||||||
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 | ![]() | 156.5 KB | 表示 | ![]() |
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PDB形式 | ![]() | 122.8 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 | ![]() | 477.1 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 494.6 KB | 表示 | |
XML形式データ | ![]() | 27.9 KB | 表示 | |
CIF形式データ | ![]() | 37.5 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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要素
-タンパク質 , 2種, 2分子 AB
#1: タンパク質 | 分子量: 31854.203 Da / 分子数: 1 / 断片: EXTRACELLULAR DOMAINS ALPHA 1, ALPHA 2, ALPHA 3 / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() 細胞内の位置 (発現宿主): REFOLDED FROM INCLUSION BODIES 発現宿主: ![]() ![]() |
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#2: タンパク質 | 分子量: 11793.288 Da / 分子数: 1 / Mutation: Y67C, K91C / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() 細胞内の位置 (発現宿主): REFOLDED FROM INCLUSION BODIES 発現宿主: ![]() ![]() |
-タンパク質・ペプチド , 1種, 1分子 C
#3: タンパク質・ペプチド | 分子量: 1070.280 Da / 分子数: 1 断片: RESIDUES 11 - 19 FROM TAX PROTEIN OF HUMAN T LYMPHOTROPIC VIRUS TYPE 1 由来タイプ: 組換発現 由来: (組換発現) ![]() 属: Deltaretrovirus / 生物種: Primate T-lymphotropic virus 1 / 参照: UniProt: P14079 |
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-T CELL RECEPTOR ... , 2種, 2分子 DE
#4: タンパク質 | 分子量: 22488.549 Da / 分子数: 1 / 断片: EXTRACELLULAR DOMAINS V AND C, RESIDUES 1 - 212 / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() 細胞内の位置 (発現宿主): REFOLDED FROM INCLUSION BODIES 発現宿主: ![]() ![]() |
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#5: タンパク質 | 分子量: 27360.379 Da / 分子数: 1 / 断片: EXTRACELLULAR DOMAINS V AND C, RESIDUES 1 - 246 / Mutation: C191A / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() 遺伝子: V BETA 12.3 [BV13S1] - D BETA 2.1 - J BETA 2.1 - C BETA 2 器官: PLASMA / プラスミド: PLM1 / 生物種 (発現宿主): Escherichia coli 細胞内の位置 (発現宿主): REFOLDED FROM INCLUSION BODIES 発現宿主: ![]() ![]() |
-非ポリマー , 2種, 39分子 ![](data/chem/img/EMC.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/HOH.gif)
#6: 化合物 | #7: 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: 2.9 Å3/Da / 溶媒含有率: 56 % |
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結晶化 | pH: 6.5 詳細: CRYSTALLIZED FROM 10% PEG 8000, 100 MM MGACETATE, 50 MM NACACODYLATE, PH 6.5 |
結晶化 | *PLUS 手法: unknown |
-データ収集
回折 | 平均測定温度: 100 K |
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放射光源 | 由来: ![]() ![]() ![]() |
検出器 | タイプ: ADSC QUANTUM / 検出器: CCD / 日付: 1996年5月5日 / 詳細: MIRRORS |
放射 | モノクロメーター: SI(111) / 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray |
放射波長 | 波長: 0.914 Å / 相対比: 1 |
反射 | 解像度: 2.6→12 Å / Num. obs: 29279 / % possible obs: 95 % / Observed criterion σ(I): -3.5 / 冗長度: 3.1 % / Biso Wilson estimate: 48.5 Å2 / Rmerge(I) obs: 0.11 / Rsym value: 0.11 / Net I/σ(I): 7 |
反射 シェル | 解像度: 2.6→2.69 Å / 冗長度: 2.2 % / Rmerge(I) obs: 0.246 / Mean I/σ(I) obs: 3.9 / Rsym value: 0.246 / % possible all: 82.9 |
反射 シェル | *PLUS % possible obs: 82.9 % |
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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: PDB ENTRIES 1HHK, 1BEC CHAIN 1934.4 解像度: 2.6→6 Å / Rfactor Rfree error: 0.006 / Data cutoff high absF: 1000000000 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / 交差検証法: THROUGHOUT / σ(F): 0 / 詳細: REFMAC ALSO USED FOR REFINEMENT.
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原子変位パラメータ | Biso mean: 42.4 Å2
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Refine analyze |
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精密化ステップ | サイクル: LAST / 解像度: 2.6→6 Å
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拘束条件 |
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LS精密化 シェル | 解像度: 2.6→2.71 Å / Rfactor Rfree error: 0.024 / Total num. of bins used: 8
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Xplor file |
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ソフトウェア | *PLUS 名称: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
精密化 | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
溶媒の処理 | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
拘束条件 | *PLUS
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LS精密化 シェル | *PLUS Rfactor obs: 0.359 |