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基本情報
登録情報 | データベース: PDB / ID: 1f93 | ||||||
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タイトル | CRYSTAL STRUCTURE OF A COMPLEX BETWEEN THE DIMERIZATION DOMAIN OF HNF-1 ALPHA AND THE COACTIVATOR DCOH | ||||||
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![]() | TRANSCRIPTION / four-helix bundle / transcriptional activator-coactivator complex / dimerization domain | ||||||
機能・相同性 | ![]() paraxial mesoderm formation / Phenylalanine metabolism / 4a-hydroxytetrahydrobiopterin dehydratase / 4-alpha-hydroxytetrahydrobiopterin dehydratase activity / cellular response to rapamycin / apoptotic nuclear changes / L-phenylalanine metabolic process / regulation of NADP metabolic process / renal glucose absorption / phenylalanine 4-monooxygenase activity ...paraxial mesoderm formation / Phenylalanine metabolism / 4a-hydroxytetrahydrobiopterin dehydratase / 4-alpha-hydroxytetrahydrobiopterin dehydratase activity / cellular response to rapamycin / apoptotic nuclear changes / L-phenylalanine metabolic process / regulation of NADP metabolic process / renal glucose absorption / phenylalanine 4-monooxygenase activity / regulation of hormone secretion / reproductive structure development / regulation of protein binding / cellular response to L-leucine / bile acid biosynthetic process / tetrahydrobiopterin biosynthetic process / reverse cholesterol transport / pronucleus / bile acid and bile salt transport / regulation of Wnt signaling pathway / pancreas development / negative regulation of miRNA processing / positive regulation of mitochondrial membrane potential / embryonic limb morphogenesis / insulin secretion / heme biosynthetic process / positive regulation of ATP biosynthetic process / negative regulation of peptidyl-threonine phosphorylation / glucose import / blastocyst development / photoreceptor outer segment / fatty acid transport / response to glucose / bone resorption / cholesterol metabolic process / liver development / transcription coregulator binding / cellular response to glucose stimulus / placenta development / protein localization / positive regulation of insulin secretion / fatty acid biosynthetic process / transcription coactivator binding / glucose homeostasis / double-stranded DNA binding / DNA-binding transcription activator activity, RNA polymerase II-specific / response to oxidative stress / transcription regulator complex / sequence-specific DNA binding / transcription by RNA polymerase II / transcription coactivator activity / positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction / protein dimerization activity / transcription cis-regulatory region binding / DNA-binding transcription factor activity, RNA polymerase II-specific / chromatin remodeling / positive regulation of protein phosphorylation / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / chromatin binding / positive regulation of gene expression / regulation of DNA-templated transcription / chromatin / regulation of transcription by RNA polymerase II / negative regulation of apoptotic process / positive regulation of DNA-templated transcription / negative regulation of transcription by RNA polymerase II / positive regulation of transcription by RNA polymerase II / protein-containing complex / DNA binding / identical protein binding / nucleus / cytoplasm 類似検索 - 分子機能 | ||||||
生物種 | ![]() ![]() | ||||||
手法 | ![]() ![]() | ||||||
![]() | Rose, R.B. / Bayle, J.H. / Endrizzi, J.A. / Cronk, J.D. / Crabtree, G.R. / Alber, T. | ||||||
![]() | ![]() タイトル: Structural basis of dimerization, coactivator recognition and MODY3 mutations in HNF-1alpha. 著者: Rose, R.B. / Bayle, J.H. / Endrizzi, J.A. / Cronk, J.D. / Crabtree, G.R. / Alber, T. #1: ![]() タイトル: Crystal structure of DCoH, a bifunctional, protein-binding transcriptional coactivator 著者: Endrizzi, J.A. / Cronk, J.D. / Weidong, W. / Crabtree, G.R. / Alber, T. #2: ![]() タイトル: High-resolution structures of the bifunctional enzyme and transcriptional coactivator DCoH and its complex with a product analogue 著者: Cronk, J.D. / Endrizzi, J.A. / Alber, T. | ||||||
履歴 |
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構造の表示
構造ビューア | 分子: ![]() ![]() |
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PDBx/mmCIF形式 | ![]() | 108.2 KB | 表示 | ![]() |
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PDB形式 | ![]() | 89.8 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 | ![]() | 491.2 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 509.9 KB | 表示 | |
XML形式データ | ![]() | 21.7 KB | 表示 | |
CIF形式データ | ![]() | 29.4 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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2 | ![]()
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単位格子 |
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詳細 | The biological assembly is a heterotetramer consisting of a DCoH dimer and an HNF-1 alpha dimerization domain dimer. There are two heterotetramers in the asymmetric unit. |
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要素
#1: タンパク質 | 分子量: 12158.288 Da / 分子数: 4 / 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: 3386.951 Da / 分子数: 4 / Fragment: DIMERIZATION DOMAIN (RESIDUES 1-32) / 由来タイプ: 合成 詳細: THIS PEPTIDE WAS CHEMICALLY SYNTHESIZED. THE SEQUENCE OF THIS PEPTIDE NATURALLY OCCURS IN MOUSE (MUS MUSCULUS) 参照: UniProt: P22361 #3: 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: 2.3 Å3/Da / 溶媒含有率: 46.61 % | |||||||||||||||||||||||||||||||||||
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結晶化 | 温度: 277 K / 手法: 蒸気拡散法, ハンギングドロップ法 / pH: 5 詳細: PEG 8000, potassium succinate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 277.0K | |||||||||||||||||||||||||||||||||||
結晶化 | *PLUS 温度: 4 ℃ / 手法: 蒸気拡散法 / 詳細: used microseeding | |||||||||||||||||||||||||||||||||||
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: ![]() ![]() ![]() |
検出器 | タイプ: ADSC QUANTUM / 検出器: CCD / 日付: 1998年1月1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: 1.0688 Å / 相対比: 1 |
反射 | 解像度: 2.6→20 Å / Num. all: 59400 / Num. obs: 16500 / % possible obs: 95 % / Observed criterion σ(F): 4 / Observed criterion σ(I): 2 / 冗長度: 3.6 % / Biso Wilson estimate: 43.3 Å2 / Rmerge(I) obs: 0.06 / Net I/σ(I): 22 |
反射 シェル | 解像度: 2.6→2.67 Å / 冗長度: 3.4 % / Rmerge(I) obs: 0.3 / Num. unique all: 1800 / % possible all: 95 |
反射 | *PLUS % possible obs: 95 % / Num. measured all: 59400 / Rmerge(I) obs: 0.057 |
反射 シェル | *PLUS % possible obs: 95 % / Rmerge(I) obs: 0.243 / Mean I/σ(I) obs: 2.6 |
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解析
ソフトウェア |
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精密化 | 解像度: 2.6→20.1 Å / Rfactor Rfree error: 0.008 / Data cutoff high absF: 912032.47 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / 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 / 詳細: used non-crystallographic symmetry
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溶媒の処理 | 溶媒モデル: FLAT MODEL / Bsol: 55.35 Å2 / ksol: 0.36 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | Biso mean: 58.7 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→20.1 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→2.76 Å / Rfactor Rfree error: 0.024 / Total num. of bins used: 6
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Xplor file |
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ソフトウェア | *PLUS 名称: CNS / バージョン: 0.4 / 分類: refinement | ||||||||||||||||||||||||||||||||||||||||||||
精密化 | *PLUS σ(F): 0 / % reflection Rfree: 7.8 % | ||||||||||||||||||||||||||||||||||||||||||||
溶媒の処理 | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | *PLUS Biso mean: 58.7 Å2 | ||||||||||||||||||||||||||||||||||||||||||||
拘束条件 | *PLUS
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LS精密化 シェル | *PLUS Rfactor Rfree: 0.371 / % reflection Rfree: 8 % / Rfactor Rwork: 0.31 |