+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 2erm | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
タイトル | Solution structure of a biologically active human FGF-1 monomer, complexed to a hexasaccharide heparin-analogue | |||||||||
要素 | Heparin-binding growth factor 1 | |||||||||
キーワード | HORMONE/GROWTH FACTOR / HEPARIN-LIKE HEXASACCHARIDE / FIBROBLAST GROWTH FACTOR (線維芽細胞増殖因子) / PROTEIN-CARBOHYDRATE COMPLEX / HORMONE-GROWTH FACTOR COMPLEX | |||||||||
機能・相同性 | 機能・相同性情報 mesonephric epithelium development / branch elongation involved in ureteric bud branching / regulation of endothelial tube morphogenesis / FGFR3b ligand binding and activation / regulation of endothelial cell chemotaxis to fibroblast growth factor / Signaling by activated point mutants of FGFR3 / FGFR3c ligand binding and activation / Phospholipase C-mediated cascade; FGFR3 / FGFR2b ligand binding and activation / positive regulation of cholesterol biosynthetic process ...mesonephric epithelium development / branch elongation involved in ureteric bud branching / regulation of endothelial tube morphogenesis / FGFR3b ligand binding and activation / regulation of endothelial cell chemotaxis to fibroblast growth factor / Signaling by activated point mutants of FGFR3 / FGFR3c ligand binding and activation / Phospholipase C-mediated cascade; FGFR3 / FGFR2b ligand binding and activation / positive regulation of cholesterol biosynthetic process / fibroblast growth factor receptor binding / FGFR2c ligand binding and activation / Activated point mutants of FGFR2 / Phospholipase C-mediated cascade; FGFR2 / FGFR4 ligand binding and activation / FGFR1b ligand binding and activation / 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 hepatocyte proliferation / S100 protein binding / positive regulation of intracellular signal transduction / Signaling by FGFR2 IIIa TM / PI-3K cascade:FGFR3 / positive regulation of sprouting angiogenesis / PI-3K cascade:FGFR2 / PI-3K cascade:FGFR4 / PI-3K cascade:FGFR1 / positive regulation of cell division / PI3K Cascade / anatomical structure morphogenesis / fibroblast growth factor receptor signaling pathway / SHC-mediated cascade:FGFR3 / SHC-mediated cascade:FGFR2 / SHC-mediated cascade:FGFR4 / SHC-mediated cascade:FGFR1 / FRS-mediated FGFR3 signaling / FRS-mediated FGFR2 signaling / FRS-mediated FGFR4 signaling / Signaling by FGFR3 in disease / FRS-mediated FGFR1 signaling / Hsp70 protein binding / Signaling by FGFR2 in disease / Signaling by FGFR1 in disease / activation of protein kinase B activity / positive regulation of endothelial cell migration / 細胞外マトリックス / epithelial cell proliferation / positive regulation of epithelial cell proliferation / Negative regulation of FGFR3 signaling / Negative regulation of FGFR2 signaling / Negative regulation of FGFR4 signaling / Negative regulation of FGFR1 signaling / animal organ morphogenesis / growth factor activity / positive regulation of MAP kinase activity / lung development / wound healing / positive regulation of angiogenesis / Constitutive Signaling by Aberrant PI3K in Cancer / integrin binding / PIP3 activates AKT signaling / heparin binding / cellular response to heat / 細胞皮質 / PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling / RAF/MAP kinase cascade / 血管新生 / positive regulation of ERK1 and ERK2 cascade / 細胞分化 / positive regulation of cell migration / positive regulation of cell population proliferation / positive regulation of gene expression / シグナル伝達 / positive regulation of transcription by RNA polymerase II / extracellular space / extracellular region / 核質 / 細胞核 / 細胞質基質 / 細胞質 類似検索 - 分子機能 | |||||||||
生物種 | Homo sapiens (ヒト) | |||||||||
手法 | 溶液NMR / Simulated annealing, restrained molecular dynamics | |||||||||
データ登録者 | Canales, A. / Lozano, R. / Nieto, P.M. / Martin-Lomas, M. / Gimenez-Gallego, G. / Jimenez-Barbero, J. | |||||||||
引用 | ジャーナル: Febs J. / 年: 2006 タイトル: Solution NMR structure of a human FGF-1 monomer, activated by a hexasaccharide heparin-analogue. 著者: Canales, A. / Lozano, R. / Lopez-Mendez, B. / Angulo, J. / Ojeda, R. / Nieto, P.M. / Martin-Lomas, M. / Gimenez-Gallego, G. / Jimenez-Barbero, J. #1: ジャーナル: Biochemistry / 年: 2000 タイトル: 1H NMR structural characterization of a nonmitogenic, vasodilatory, ischemia-protector and neuromodulatory acidic fibroblast growth factor 著者: Lozano, R.M. / Pineda-Lucena, A. / Gonzalez, C. / Jimenez, M.A. / Cuevas, P. / Redondo-Horcajo, M. / Sanz, J.M. / Rico, M. / Gimenez-Gallego, G. #2: ジャーナル: J.Biol.Chem. / 年: 2003 タイトル: Leads for development of new naphthalenesulfonate derivatives with enhanced antiangiogenic activity: crystal structure of acidic fibroblast growth factor in complex with 5-amino-2-naphthalene sulfonate 著者: Fernandez-Tornero, C. / Lozano, R.M. / Redondo-Horcajo, M. / Gomez, A. / Lopez, J. / Uriel, C. / Valverde, S. / Cuevas, P. / Romero, A. / Gimenez-Gallego, G. #3: ジャーナル: Proteins / 年: 2004 タイトル: An atomic resolution structure for human fibroblast growth factor 1 著者: Bernett, M.J. / Somasundaram, T. / Blaber, M. #4: ジャーナル: Nature / 年: 1998 タイトル: Structure of a heparin-linked biologically active dimer of fibroblast growth factor 著者: DiGabriele, A.D. / Lax, I. / Chen, D.I. / Svahn, C.M. / Jaye, M. / Schlessinger, J. / Hendrickson, W.A. | |||||||||
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 | 2erm.cif.gz | 885.1 KB | 表示 | PDBx/mmCIF形式 |
---|---|---|---|---|
PDB形式 | pdb2erm.ent.gz | 738.8 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 2erm.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/er/2erm ftp://data.pdbj.org/pub/pdb/validation_reports/er/2erm | HTTPS FTP |
---|
-関連構造データ
-リンク
-集合体
登録構造単位 |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR アンサンブル |
|
-要素
#1: タンパク質 | 分子量: 15710.691 Da / 分子数: 1 / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 遺伝子: FGF1, FGFA / プラスミド: pRAT4 / 生物種 (発現宿主): Escherichia coli / 発現宿主: Escherichia coli BL21(DE3) (大腸菌) / 株 (発現宿主): BL21(DE3) / 参照: UniProt: P05230 |
---|---|
#2: 多糖 | 2-deoxy-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2- ...2-deoxy-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-acetamido-2-deoxy-6-O-sulfo-alpha-D-glucopyranose-(1-4)-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid |
#3: 化合物 | ChemComp-IPA / |
-実験情報
-実験
実験 | 手法: 溶液NMR | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR実験 |
|
-試料調製
詳細 |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
試料状態 | イオン強度: 150 mM NaCl / pH: 6.0 / 圧: ambient / 温度: 298 K |
-NMR測定
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 | 相対比: 1 | |||||||||||||||
NMRスペクトロメーター |
|
-解析
NMR software |
| ||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
精密化 | 手法: Simulated annealing, restrained molecular dynamics / ソフトェア番号: 1 詳細: The first six residues of the protein could not be assigned due to the disorder of the N-terminus region. These are shown as missing residues in remark 465 in all the models. The anomalous ...詳細: The first six residues of the protein could not be assigned due to the disorder of the N-terminus region. These are shown as missing residues in remark 465 in all the models. The anomalous torsion angles observed for his 107 and glu 105 are also found in the related pdbs 1dzd and 1dzc of fgf-1. Most of the peptide bonds that deviate significantly from both cis and trans conformation, shown in remark 500, correspond to residues implicated in the binding of the ligand. | ||||||||||||||||||||||||
代表構造 | 選択基準: lowest energy | ||||||||||||||||||||||||
NMRアンサンブル | コンフォーマー選択の基準: structures with the lowest energy 計算したコンフォーマーの数: 30 / 登録したコンフォーマーの数: 20 |