+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 1cvs | ||||||
---|---|---|---|---|---|---|---|
タイトル | CRYSTAL STRUCTURE OF A DIMERIC FGF2-FGFR1 COMPLEX | ||||||
要素 |
| ||||||
キーワード | GROWTH FACTOR/GROWTH FACTOR RECEPTOR / FGF / FGFR (線維芽細胞増殖因子受容体) / IMMUNOGLOBULIN-LIKE (抗体) / SIGNAL TRANSDUCTION (シグナル伝達) / DIMERIZATION / GROWTH FACTOR-GROWTH FACTOR RECEPTOR COMPLEX | ||||||
機能・相同性 | 機能・相同性情報 growth factor dependent regulation of skeletal muscle satellite cell proliferation / positive regulation of inner ear auditory receptor cell differentiation / positive regulation of neuroepithelial cell differentiation / regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis / positive regulation of lens fiber cell differentiation / positive regulation of cell fate specification / regulation of retinal cell programmed cell death / Formation of intermediate mesoderm / regulation of cell migration involved in sprouting angiogenesis / FGFRL1 modulation of FGFR1 signaling ...growth factor dependent regulation of skeletal muscle satellite cell proliferation / positive regulation of inner ear auditory receptor cell differentiation / positive regulation of neuroepithelial cell differentiation / regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis / positive regulation of lens fiber cell differentiation / positive regulation of cell fate specification / regulation of retinal cell programmed cell death / Formation of intermediate mesoderm / regulation of cell migration involved in sprouting angiogenesis / FGFRL1 modulation of FGFR1 signaling / corticotropin hormone secreting cell differentiation / thyroid-stimulating hormone-secreting cell differentiation / chondroblast differentiation / lymphatic endothelial cell migration / chemokine binding / negative regulation of fibroblast growth factor receptor signaling pathway / Signaling by FGFR1 amplification mutants / negative regulation of fibroblast growth factor production / positive regulation of mitotic cell cycle DNA replication / regulation of extrinsic apoptotic signaling pathway in absence of ligand / Signaling by plasma membrane FGFR1 fusions / diphosphate metabolic process / FGFR1c and Klotho ligand binding and activation / POU5F1 (OCT4), SOX2, NANOG activate genes related to proliferation / vitamin D3 metabolic process / regulation of phosphate transport / regulation of lateral mesodermal cell fate specification / positive regulation of cerebellar granule cell precursor proliferation / positive regulation of MAPKKK cascade by fibroblast growth factor receptor signaling pathway / cementum mineralization / positive regulation of endothelial cell chemotaxis to fibroblast growth factor / cerebellar granule cell precursor proliferation / receptor-receptor interaction / positive regulation of stem cell differentiation / response to sodium phosphate / hyaluronan catabolic process / regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling / fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development / auditory receptor cell development / glial cell differentiation / ventricular zone neuroblast division / regulation of endothelial cell chemotaxis to fibroblast growth factor / Epithelial-Mesenchymal Transition (EMT) during gastrulation / inner ear auditory receptor cell differentiation / negative regulation of wound healing / positive regulation of parathyroid hormone secretion / chordate embryonic development / Signaling by activated point mutants of FGFR3 / FGFR3c ligand binding and activation / stem cell development / Phospholipase C-mediated cascade; FGFR3 / mesenchymal cell proliferation / embryonic morphogenesis / FGFR2b ligand binding and activation / paraxial mesoderm development / fibroblast growth factor receptor binding / angiogenesis involved in coronary vascular morphogenesis / FGFR2c ligand binding and activation / Activated point mutants of FGFR2 / positive regulation of epithelial tube formation / Phospholipase C-mediated cascade; FGFR2 / FGFR4 ligand binding and activation / fibroblast growth factor receptor activity / FGFR1b ligand binding and activation / branching involved in salivary gland morphogenesis / mammary gland epithelial cell differentiation / Phospholipase C-mediated cascade; FGFR4 / Signaling by activated point mutants of FGFR1 / FGFR1c ligand binding and activation / organ induction / Downstream signaling of activated FGFR1 / Phospholipase C-mediated cascade: FGFR1 / positive regulation of phospholipase activity / lung-associated mesenchyme development / 傍分泌 / cell projection assembly / negative regulation of fibroblast migration / positive regulation of endothelial cell chemotaxis / phosphatidylinositol-mediated signaling / endothelial cell proliferation / cell migration involved in sprouting angiogenesis / outer ear morphogenesis / middle ear morphogenesis / embryonic limb morphogenesis / skeletal system morphogenesis / embryo development ending in birth or egg hatching / ureteric bud development / positive regulation of vascular endothelial cell proliferation / positive regulation of mesenchymal cell proliferation / cardiac muscle cell proliferation / inner ear morphogenesis / Signaling by FGFR2 IIIa TM / positive regulation of DNA biosynthetic process / Syndecan interactions / branching involved in ureteric bud morphogenesis / midbrain development / positive regulation of neuroblast proliferation / positive regulation of cell migration involved in sprouting angiogenesis / PI-3K cascade:FGFR3 / fibroblast growth factor binding 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 / MOLECULAR REPLACEMEN / 解像度: 2.8 Å | ||||||
データ登録者 | Plotnikov, A.N. / Schlessinger, J. / Hubbard, S.R. / Mohammadi, M. | ||||||
引用 | ジャーナル: Cell(Cambridge,Mass.) / 年: 1999 タイトル: Structural basis for FGF receptor dimerization and activation. 著者: Plotnikov, A.N. / Schlessinger, J. / Hubbard, S.R. / Mohammadi, M. | ||||||
履歴 |
|
-構造の表示
構造ビューア | 分子: MolmilJmol/JSmol |
---|
-ダウンロードとリンク
-ダウンロード
PDBx/mmCIF形式 | 1cvs.cif.gz | 138.8 KB | 表示 | PDBx/mmCIF形式 |
---|---|---|---|---|
PDB形式 | pdb1cvs.ent.gz | 109 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 1cvs.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/cv/1cvs ftp://data.pdbj.org/pub/pdb/validation_reports/cv/1cvs | HTTPS FTP |
---|
-関連構造データ
-リンク
-集合体
登録構造単位 |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
2 |
| ||||||||
単位格子 |
|
-要素
#1: タンパク質 | 分子量: 15110.339 Da / 分子数: 2 / 変異: YES / 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: P09038 #2: タンパク質 | 分子量: 25274.805 Da / 分子数: 2 / Fragment: IG-LIKE DOMAINS 2 AND 3 / 変異: YES / 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: P11362 #3: 化合物 | ChemComp-SO4 / |
---|
-実験情報
-実験
実験 | 手法: X線回折 / 使用した結晶の数: 1 |
---|
-試料調製
結晶 | マシュー密度: 2.9 Å3/Da / 溶媒含有率: 58 % | ||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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: 8.5 詳細: ammonium sulfate, glycerol, Tris-HCl, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K | ||||||||||||||||||||||||||||||||||||||||||
結晶化 | *PLUS 温度: 20 ℃ | ||||||||||||||||||||||||||||||||||||||||||
溶液の組成 | *PLUS
|
-データ収集
回折 | 平均測定温度: 110 K |
---|---|
放射光源 | 由来: シンクロトロン / サイト: NSLS / ビームライン: X4A / 波長: 0.984 |
検出器 | タイプ: SDMS / 検出器: AREA DETECTOR / 日付: 1999年4月25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: 0.984 Å / 相対比: 1 |
反射 | 解像度: 2.8→25 Å / Num. obs: 196126 / % possible obs: 99.8 % / Observed criterion σ(I): 0 / 冗長度: 7.9 % / Rmerge(I) obs: 0.072 / Net I/σ(I): 18.3 |
反射 シェル | 解像度: 2.8→2.9 Å / 冗長度: 7.3 % / Rmerge(I) obs: 0.255 / % possible all: 98.1 |
反射 | *PLUS Num. obs: 24726 / Num. measured all: 196126 |
反射 シェル | *PLUS % possible obs: 98.1 % |
-解析
ソフトウェア |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
精密化 | 構造決定の手法: MOLECULAR REPLACEMEN 開始モデル: FGF2, TELOKIN 解像度: 2.8→25 Å / 交差検証法: THROUGHOUT / σ(F): 2 / 立体化学のターゲット値: ENGH & HUBER
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
溶媒の処理 | 溶媒モデル: CNS / Bsol: 27 Å2 / ksol: 0.35 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | Biso mean: 38.7 Å2
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
精密化ステップ | サイクル: LAST / 解像度: 2.8→25 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
拘束条件 |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints NCS | NCS model details: RESTRAINED | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ソフトウェア | *PLUS 名称: 'CNS' / 分類: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
拘束条件 | *PLUS
|