+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 2jf9 | ||||||
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タイトル | ESTROGEN RECEPTOR ALPHA LBD IN COMPLEX WITH A TAMOXIFEN-SPECIFIC PEPTIDE ANTAGONIST | ||||||
要素 |
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キーワード | TRANSCRIPTION (転写 (生物学)) / TRANSCRIPTION FACTOR (転写因子) / LIPID-BINDING / TRANSCRIPTION REGULATION / LIGAND-BINDING DOMAIN (LBD) / RECEPTOR (受容体) / ZINC-FINGER (ジンクフィンガー) / DNA-BINDING / STEROID-BINDING / NUCLEAR RECEPTOR (核内受容体) / PEPTIDE ANTAGONIST / METAL-BINDING / NUCLEAR PROTEIN / PHOSPHORYLATION (リン酸化) | ||||||
機能・相同性 | 機能・相同性情報 regulation of epithelial cell apoptotic process / antral ovarian follicle growth / G protein-coupled estrogen receptor activity / regulation of branching involved in prostate gland morphogenesis / RUNX1 regulates transcription of genes involved in WNT signaling / RUNX1 regulates estrogen receptor mediated transcription / regulation of toll-like receptor signaling pathway / prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis / nuclear estrogen receptor activity / epithelial cell proliferation involved in mammary gland duct elongation ...regulation of epithelial cell apoptotic process / antral ovarian follicle growth / G protein-coupled estrogen receptor activity / regulation of branching involved in prostate gland morphogenesis / RUNX1 regulates transcription of genes involved in WNT signaling / RUNX1 regulates estrogen receptor mediated transcription / regulation of toll-like receptor signaling pathway / prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis / nuclear estrogen receptor activity / epithelial cell proliferation involved in mammary gland duct elongation / epithelial cell development / prostate epithelial cord elongation / negative regulation of smooth muscle cell apoptotic process / mammary gland branching involved in pregnancy / uterus development / vagina development / TFIIB-class transcription factor binding / androgen metabolic process / steroid hormone mediated signaling pathway / mammary gland alveolus development / intracellular estrogen receptor signaling pathway / cellular response to estrogen stimulus / estrogen response element binding / : / intracellular steroid hormone receptor signaling pathway / negative regulation of canonical NF-kappaB signal transduction / Nuclear signaling by ERBB4 / RNA polymerase II preinitiation complex assembly / protein localization to chromatin / 14-3-3 protein binding / TBP-class protein binding / steroid binding / nitric-oxide synthase regulator activity / TFAP2 (AP-2) family regulates transcription of growth factors and their receptors / ESR-mediated signaling / transcription corepressor binding / negative regulation of miRNA transcription / cellular response to estradiol stimulus / transcription coregulator binding / 細胞分化 / nuclear estrogen receptor binding / positive regulation of nitric-oxide synthase activity / SUMOylation of intracellular receptors / ユークロマチン / negative regulation of DNA-binding transcription factor activity / beta-catenin binding / transcription coactivator binding / positive regulation of DNA-binding transcription factor activity / Nuclear Receptor transcription pathway / response to estrogen / Regulation of RUNX2 expression and activity / Constitutive Signaling by Aberrant PI3K in Cancer / nuclear receptor activity / positive regulation of nitric oxide biosynthetic process / male gonad development / positive regulation of fibroblast proliferation / sequence-specific double-stranded DNA binding / Ovarian tumor domain proteases / PIP3 activates AKT signaling / response to estradiol / phospholipase C-activating G protein-coupled receptor signaling pathway / ATPase binding / positive regulation of cytosolic calcium ion concentration / regulation of inflammatory response / fibroblast proliferation / PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling / DNA-binding transcription activator activity, RNA polymerase II-specific / Estrogen-dependent gene expression / transcription regulator complex / Extra-nuclear estrogen signaling / calmodulin binding / DNA-binding transcription factor activity, RNA polymerase II-specific / クロマチンリモデリング / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / negative regulation of gene expression / chromatin binding / クロマチン / regulation of DNA-templated transcription / regulation of transcription by RNA polymerase II / protein kinase binding / positive regulation of DNA-templated transcription / ゴルジ体 / enzyme binding / negative regulation of transcription by RNA polymerase II / シグナル伝達 / positive regulation of transcription by RNA polymerase II / protein-containing complex / zinc ion binding / 核質 / 生体膜 / identical protein binding / 細胞核 / 細胞膜 / 細胞質基質 / 細胞質 類似検索 - 分子機能 | ||||||
生物種 | HOMO SAPIENS (ヒト) SYNTHETIC CONSTRUCT (人工物) | ||||||
手法 | X線回折 / シンクロトロン / 分子置換 / 解像度: 2.1 Å | ||||||
データ登録者 | Heldring, N. / Pawson, T. / McDonnell, D. / Treuter, E. / Gustafsson, J.A. / Pike, A.C.W. | ||||||
引用 | ジャーナル: J.Biol.Chem. / 年: 2007 タイトル: Structural Insights Into Corepressor Recognition by Antagonist-Bound Estrogen Receptors. 著者: Heldring, N. / Pawson, T. / Mcdonnell, D. / Treuter, E. / Gustafsson, J.A. / Pike, A.C.W. | ||||||
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 | 2jf9.cif.gz | 156.2 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb2jf9.ent.gz | 123.1 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 2jf9.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/jf/2jf9 ftp://data.pdbj.org/pub/pdb/validation_reports/jf/2jf9 | 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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単位格子 |
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Components on special symmetry positions |
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非結晶学的対称性 (NCS) | NCS oper:
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-要素
-タンパク質 / タンパク質・ペプチド , 2種, 6分子 ABCPQR
#1: タンパク質 | 分子量: 28672.541 Da / 分子数: 3 / 断片: LIGAND-BINDING DOMAIN, RESIDUES 304-533 / 由来タイプ: 組換発現 / 由来: (組換発現) HOMO SAPIENS (ヒト) / プラスミド: PET15B / 発現宿主: ESCHERICHIA COLI BL21(DE3) (大腸菌) / Variant (発現宿主): C41 / 参照: UniProt: P03372 #2: タンパク質・ペプチド | 分子量: 1541.728 Da / 分子数: 3 / 由来タイプ: 合成 詳細: PEPTIDE DERIVED FROM PHAGE DISPLAY SCREEN OF RANDOM PEPTIDE LIBRARY 由来: (合成) SYNTHETIC CONSTRUCT (人工物) |
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-非ポリマー , 5種, 308分子
#3: 化合物 | #4: 化合物 | ChemComp-BCT / | #5: 化合物 | ChemComp-EDO / #6: 化合物 | #7: 水 | ChemComp-HOH / | |
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-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: 4.08 Å3/Da / 溶媒含有率: 70 % |
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結晶化 | pH: 8.5 詳細: 2.5% PEG550MME 2.5% PEK20K 0.06M CALCIUM ACETATE 0.1M TRIS PH8.5, pH 8.50 |
-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: ESRF / ビームライン: ID14-2 / 波長: 0.933 |
検出器 | タイプ: ADSC CCD / 検出器: CCD / 日付: 2005年2月10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: 0.933 Å / 相対比: 1 |
反射 | 解像度: 2.1→50 Å / Num. obs: 80788 / % possible obs: 100 % / Observed criterion σ(I): -3 / 冗長度: 9.1 % / Biso Wilson estimate: 28.5 Å2 / Rmerge(I) obs: 0.06 / Net I/σ(I): 11.6 |
反射 シェル | 解像度: 2.1→2.18 Å / 冗長度: 7.4 % / Rmerge(I) obs: 0.41 / Mean I/σ(I) obs: 3 / % possible all: 100 |
-解析
ソフトウェア |
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精密化 | 構造決定の手法: 分子置換 開始モデル: PDB ENTRY 2BJ4 解像度: 2.1→50 Å / Cor.coef. Fo:Fc: 0.951 / Cor.coef. Fo:Fc free: 0.945 / SU B: 5.324 / SU ML: 0.074 / TLS residual ADP flag: LIKELY RESIDUAL / 交差検証法: THROUGHOUT / ESU R: 0.126 / ESU R Free: 0.116 / 立体化学のターゲット値: MAXIMUM LIKELIHOOD / 詳細: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.
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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: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | Biso mean: 25.43 Å2
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精密化ステップ | サイクル: LAST / 解像度: 2.1→50 Å
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拘束条件 |
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