+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 1aya | ||||||
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タイトル | CRYSTAL STRUCTURES OF PEPTIDE COMPLEXES OF THE AMINO-TERMINAL SH2 DOMAIN OF THE SYP TYROSINE PHOSPHATASE | ||||||
要素 |
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キーワード | HYDROLASE(SH2 DOMAIN) | ||||||
機能・相同性 | 機能・相同性情報 metanephric mesenchymal cell migration / metanephric glomerular mesangium development / response to ceramide / lung growth / Signaling by PDGF / PI-3K cascade:FGFR3 / PI-3K cascade:FGFR4 / platelet-derived growth factor receptor activity / platelet-derived growth factor beta-receptor activity / cell migration involved in coronary angiogenesis ...metanephric mesenchymal cell migration / metanephric glomerular mesangium development / response to ceramide / lung growth / Signaling by PDGF / PI-3K cascade:FGFR3 / PI-3K cascade:FGFR4 / platelet-derived growth factor receptor activity / platelet-derived growth factor beta-receptor activity / cell migration involved in coronary angiogenesis / metanephric glomerular mesangial cell proliferation involved in metanephros development / PI-3K cascade:FGFR1 / PI-3K cascade:FGFR2 / FRS-mediated FGFR3 signaling / FRS-mediated FGFR4 signaling / MET activates PTPN11 / Regulation of IFNA/IFNB signaling / Costimulation by the CD28 family / FRS-mediated FGFR1 signaling / FRS-mediated FGFR2 signaling / Tie2 Signaling / positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway / PECAM1 interactions / Interleukin-20 family signaling / smooth muscle cell chemotaxis / MAPK3 (ERK1) activation / MAPK1 (ERK2) activation / Signaling by CSF3 (G-CSF) / cardiac vascular smooth muscle cell differentiation / CTLA4 inhibitory signaling / GAB1 signalosome / PI3K Cascade / Regulation of RUNX1 Expression and Activity / metanephric glomerular capillary formation / Interleukin-6 signaling / Negative regulation of FGFR3 signaling / Negative regulation of FGFR4 signaling / Downstream signal transduction / Negative regulation of FGFR1 signaling / Negative regulation of FGFR2 signaling / GPVI-mediated activation cascade / Spry regulation of FGF signaling / Activation of IRF3, IRF7 mediated by TBK1, IKKε (IKBKE) / PD-1 signaling / cell migration involved in vasculogenesis / Signaling by SCF-KIT / glycosaminoglycan biosynthetic process / aorta morphogenesis / positive regulation of signal transduction / positive regulation of cell proliferation by VEGF-activated platelet derived growth factor receptor signaling pathway / negative regulation of hormone secretion / platelet-derived growth factor binding / RAF/MAP kinase cascade / positive regulation of hepatic stellate cell activation / negative regulation of cortisol secretion / intestinal epithelial cell migration / retina vasculature development in camera-type eye / microvillus organization / negative regulation of growth hormone secretion / PIP3 activates AKT signaling / genitalia development / cardiac myofibril assembly / Platelet sensitization by LDL / atrioventricular canal development / ruffle assembly / PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling / negative regulation of cell adhesion mediated by integrin / smooth muscle tissue development / Interleukin-3, Interleukin-5 and GM-CSF signaling / RET signaling / tissue homeostasis / positive regulation of chemotaxis / positive regulation of hormone secretion / cerebellar cortex formation / regulation of protein export from nucleus / positive regulation of ossification / hormone metabolic process / negative regulation of chondrocyte differentiation / face morphogenesis / skeletal system morphogenesis / peptide hormone receptor binding / platelet formation / megakaryocyte development / negative regulation of type I interferon production / organ growth / positive regulation of Rho protein signal transduction / adrenal gland development / triglyceride metabolic process / positive regulation of DNA biosynthetic process / positive regulation of smooth muscle cell migration / positive regulation of calcium ion import / blood vessel development / plasma membrane raft / positive regulation of focal adhesion assembly / regulation of peptidyl-tyrosine phosphorylation / regulation of cell adhesion mediated by integrin / phospholipase binding / Bergmann glial cell differentiation / phosphoprotein phosphatase activity / inner ear development 類似検索 - 分子機能 | ||||||
生物種 | Mus musculus (ハツカネズミ) | ||||||
手法 | X線回折 / 解像度: 2.05 Å | ||||||
データ登録者 | Lee, C.-H. / Kuriyan, J. | ||||||
引用 | ジャーナル: Structure / 年: 1994 タイトル: Crystal structures of peptide complexes of the amino-terminal SH2 domain of the Syp tyrosine phosphatase. 著者: Lee, C.H. / Kominos, D. / Jacques, S. / Margolis, B. / Schlessinger, J. / Shoelson, S.E. / Kuriyan, J. #1: ジャーナル: Cell(Cambridge,Mass.) / 年: 1993 タイトル: Binding of a High Affinity Phosphotyrosyl Peptide to the Src Sh2 Domain: Crystal Structures of the Complexed and Peptide-Free Forms 著者: Waksman, G. / Shoelson, S.E. / Pant, N. / Cowburn, D. / Kuriyan, J. #2: ジャーナル: Curr.Opin.Struct.Biol. / 年: 1993 タイトル: Structures of Sh2 and SH3 Domains 著者: Kuriyan, J. / Cowburn, D. #3: ジャーナル: Nature / 年: 1992 タイトル: Crystal Structure of the Phosphotyrosine Recognition Domain Sh2 of V-Src Complexed with Tyrosine-Phosphorylated Peptides 著者: Waksman, G. / Kominos, D. / Robertson, S.R. / Pant, N. / Baltimore, D. / Birge, R.B. / Cowburn, D. / Hanafusa, H. / Mayer, B.J. / Overduin, M. / Resh, M.D. / Rios, C.B. / Silverman, L. / Kuriyan, J. | ||||||
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 | 1aya.cif.gz | 58.2 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb1aya.ent.gz | 42.8 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 1aya.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 | 1aya_validation.pdf.gz | 435.2 KB | 表示 | wwPDB検証レポート |
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文書・詳細版 | 1aya_full_validation.pdf.gz | 441.7 KB | 表示 | |
XML形式データ | 1aya_validation.xml.gz | 13.1 KB | 表示 | |
CIF形式データ | 1aya_validation.cif.gz | 17.5 KB | 表示 | |
アーカイブディレクトリ | https://data.pdbj.org/pub/pdb/validation_reports/ay/1aya ftp://data.pdbj.org/pub/pdb/validation_reports/ay/1aya | 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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2 |
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単位格子 |
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-要素
#1: タンパク質 | 分子量: 11528.979 Da / 分子数: 2 / 由来タイプ: 組換発現 / 由来: (組換発現) Mus musculus (ハツカネズミ) / 参照: UniProt: P35235, protein-tyrosine-phosphatase #2: タンパク質・ペプチド | 分子量: 1300.307 Da / 分子数: 2 / 由来タイプ: 組換発現 / 由来: (組換発現) Mus musculus (ハツカネズミ) / 参照: UniProt: P05622 #3: 水 | ChemComp-HOH / | |
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-実験情報
-実験
実験 | 手法: X線回折 |
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-試料調製
結晶 | マシュー密度: 1.93 Å3/Da / 溶媒含有率: 36.35 % | ||||||||||||||||||||||||||||||||||||||||
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結晶化 | *PLUS 温度: 4 ℃ / pH: 6 / 手法: 蒸気拡散法, ハンギングドロップ法 | ||||||||||||||||||||||||||||||||||||||||
溶液の組成 | *PLUS
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-データ収集
放射 | 散乱光タイプ: x-ray |
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放射波長 | 相対比: 1 |
反射 | *PLUS 最高解像度: 2.05 Å / 最低解像度: 30 Å / Num. all: 26661 / Num. obs: 11145 / % possible obs: 90.2 % / Rmerge(I) obs: 0.084 |
-解析
ソフトウェア |
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精密化 | 解像度: 2.05→6 Å / σ(F): 2 /
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精密化ステップ | サイクル: LAST / 解像度: 2.05→6 Å
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拘束条件 |
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ソフトウェア | *PLUS 名称: X-PLOR / 分類: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
精密化 | *PLUS Rfactor obs: 0.18 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
溶媒の処理 | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
拘束条件 | *PLUS タイプ: x_angle_d / Dev ideal: 3 |