+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 1j7v | ||||||
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タイトル | HUMAN IL-10 / IL-10R1 COMPLEX | ||||||
要素 |
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キーワード | CYTOKINE/RECEPTOR / cytokine receptor complex / 4 helix bundle / class 2 receptor / interleukin-10 / CYTOKINE-RECEPTOR COMPLEX | ||||||
機能・相同性 | 機能・相同性情報 interleukin-10 binding / negative regulation of chronic inflammatory response to antigenic stimulus / interleukin-10 receptor activity / interleukin-10 receptor binding / regulation of response to wounding / negative regulation of cytokine activity / negative regulation of interleukin-18 production / negative regulation of myeloid dendritic cell activation / negative regulation of interferon-alpha production / negative regulation of chemokine (C-C motif) ligand 5 production ...interleukin-10 binding / negative regulation of chronic inflammatory response to antigenic stimulus / interleukin-10 receptor activity / interleukin-10 receptor binding / regulation of response to wounding / negative regulation of cytokine activity / negative regulation of interleukin-18 production / negative regulation of myeloid dendritic cell activation / negative regulation of interferon-alpha production / negative regulation of chemokine (C-C motif) ligand 5 production / response to carbon monoxide / positive regulation of B cell apoptotic process / ubiquitin-dependent endocytosis / chronic inflammatory response to antigenic stimulus / cytoplasmic sequestering of NF-kappaB / response to inactivity / negative regulation of membrane protein ectodomain proteolysis / positive regulation of plasma cell differentiation / regulation of isotype switching / intestinal epithelial structure maintenance / negative regulation of heterotypic cell-cell adhesion / branching involved in labyrinthine layer morphogenesis / negative regulation of cytokine production involved in immune response / negative regulation of interleukin-1 production / negative regulation of interleukin-8 production / negative regulation of MHC class II biosynthetic process / interleukin-10-mediated signaling pathway / negative regulation of nitric oxide biosynthetic process / negative regulation of interleukin-12 production / type 2 immune response / endothelial cell apoptotic process / negative regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway / positive regulation of macrophage activation / positive regulation of MHC class II biosynthetic process / positive regulation of heterotypic cell-cell adhesion / leukocyte chemotaxis / positive regulation of signaling receptor activity / CD163 mediating an anti-inflammatory response / negative regulation of cytokine production / positive regulation of immunoglobulin production / cellular response to hepatocyte growth factor stimulus / regulation of synapse organization / B cell proliferation / positive regulation of sprouting angiogenesis / negative regulation of B cell proliferation / defense response to protozoan / Interleukin-10 signaling / negative regulation of interleukin-6 production / negative regulation of vascular associated smooth muscle cell proliferation / hemopoiesis / negative regulation of type II interferon production / negative regulation of tumor necrosis factor production / negative regulation of mitotic cell cycle / positive regulation of cell cycle / Nuclear events stimulated by ALK signaling in cancer / response to glucocorticoid / negative regulation of T cell proliferation / positive regulation of vascular associated smooth muscle cell proliferation / positive regulation of endothelial cell proliferation / Gene and protein expression by JAK-STAT signaling after Interleukin-12 stimulation / B cell differentiation / negative regulation of autophagy / FCGR3A-mediated IL10 synthesis / response to activity / positive regulation of cytokine production / cytokine activity / cellular response to estradiol stimulus / liver regeneration / positive regulation of receptor signaling pathway via JAK-STAT / positive regulation of DNA-binding transcription factor activity / growth factor activity / response to insulin / response to molecule of bacterial origin / cytokine-mediated signaling pathway / negative regulation of inflammatory response / positive regulation of miRNA transcription / Signaling by ALK fusions and activated point mutants / signaling receptor activity / cellular response to lipopolysaccharide / regulation of gene expression / Interleukin-4 and Interleukin-13 signaling / response to lipopolysaccharide / protein dimerization activity / defense response to bacterium / response to xenobiotic stimulus / apical plasma membrane / negative regulation of cell population proliferation / negative regulation of apoptotic process / positive regulation of DNA-templated transcription / positive regulation of transcription by RNA polymerase II / extracellular space / extracellular region / plasma membrane / cytosol 類似検索 - 分子機能 | ||||||
生物種 | Homo sapiens (ヒト) | ||||||
手法 | X線回折 / シンクロトロン / 多波長異常分散 / 解像度: 2.9 Å | ||||||
データ登録者 | Josephson, K. / Logsdon, N. / Walter, M.R. | ||||||
引用 | ジャーナル: Immunity / 年: 2001 タイトル: Crystal structure of the IL-10/IL-10R1 complex reveals a shared receptor binding site. 著者: Josephson, K. / Logsdon, N.J. / Walter, M.R. | ||||||
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 | 1j7v.cif.gz | 81 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb1j7v.ent.gz | 64.7 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 1j7v.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
文書・要旨 | 1j7v_validation.pdf.gz | 373.6 KB | 表示 | wwPDB検証レポート |
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文書・詳細版 | 1j7v_full_validation.pdf.gz | 388.3 KB | 表示 | |
XML形式データ | 1j7v_validation.xml.gz | 10.3 KB | 表示 | |
CIF形式データ | 1j7v_validation.cif.gz | 14.8 KB | 表示 | |
アーカイブディレクトリ | https://data.pdbj.org/pub/pdb/validation_reports/j7/1j7v ftp://data.pdbj.org/pub/pdb/validation_reports/j7/1j7v | HTTPS FTP |
-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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単位格子 |
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-要素
#1: タンパク質 | 分子量: 18672.447 Da / 分子数: 1 / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 発現宿主: Escherichia coli (大腸菌) / 参照: UniProt: P22301 |
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#2: タンパク質 | 分子量: 24506.551 Da / 分子数: 1 / Fragment: EXTRACELLULAR DOMAIN, RESIDUES 22-235 / Mutation: N29Q,N53Q,N89Q,N133Q,N156Q,N168Q / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 細胞株 (発現宿主): Schneider cells 発現宿主: Drosophila melanogaster (キイロショウジョウバエ) 参照: UniProt: Q13651 |
#3: 水 | ChemComp-HOH / |
-実験情報
-実験
実験 | 手法: X線回折 / 使用した結晶の数: 1 |
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-試料調製
結晶 | マシュー密度: 2.2 Å3/Da / 溶媒含有率: 44.04 % | ||||||||||||||||||||||||||||||||||||||||||||||||
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結晶化 | 温度: 298 K / 手法: 蒸気拡散法, ハンギングドロップ法 / pH: 6.2 詳細: PEG 6000, MgCl2, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K | ||||||||||||||||||||||||||||||||||||||||||||||||
結晶化 | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||
溶液の組成 | *PLUS
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-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: シンクロトロン / サイト: SSRL / ビームライン: BL9-2 / 波長: 0.9184 Å |
検出器 | タイプ: ADSC QUANTUM 4 / 検出器: CCD / 日付: 2000年6月30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: 0.9184 Å / 相対比: 1 |
反射 | 解像度: 2.9→50 Å / Num. all: 8189 / Num. obs: 8189 / % possible obs: 92.8 % / Observed criterion σ(F): 1.7 / Observed criterion σ(I): 0 / 冗長度: 2.8 % / Biso Wilson estimate: 62 Å2 / Rmerge(I) obs: 0.05 / Net I/σ(I): 9.1 |
反射 シェル | 解像度: 2.9→2.97 Å / 冗長度: 2.4 % / Rmerge(I) obs: 0.122 / Mean I/σ(I) obs: 5.2 / % possible all: 75 |
反射 | *PLUS 最低解像度: 50 Å / Num. measured all: 24449 / Rmerge(I) obs: 0.05 |
反射 シェル | *PLUS % possible obs: 75 % |
-解析
ソフトウェア |
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精密化 | 構造決定の手法: 多波長異常分散 / 解像度: 2.9→50 Å / 交差検証法: THROUGHOUT / σ(F): 0 / σ(I): 0 / 立体化学のターゲット値: Engh and Huber
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原子変位パラメータ |
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精密化ステップ | サイクル: LAST / 解像度: 2.9→50 Å
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拘束条件 |
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ソフトウェア | *PLUS 名称: CNS / バージョン: 1 / 分類: refinement | |||||||||||||||||||||||||||
精密化 | *PLUS 最高解像度: 2.9 Å / 最低解像度: 50 Å / σ(F): 0 / % reflection Rfree: 5 % / Rfactor obs: 0.231 | |||||||||||||||||||||||||||
溶媒の処理 | *PLUS | |||||||||||||||||||||||||||
原子変位パラメータ | *PLUS |