+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 6gl7 | ||||||||||||||||||
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タイトル | Neurturin-GFRa2-RET extracellular complex | ||||||||||||||||||
要素 |
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キーワード | SIGNALING PROTEIN / Neurotrophic signalling / Receptor tyrosine kinase (受容体型チロシンキナーゼ) / GDNF family of ligands | ||||||||||||||||||
機能・相同性 | 機能・相同性情報 glial cell-derived neurotrophic factor receptor activity / glial cell-derived neurotrophic factor receptor binding / glial cell-derived neurotrophic factor receptor signaling pathway / Peyer's patch morphogenesis / positive regulation of metanephric glomerulus development / posterior midgut development / ureter maturation / embryonic epithelial tube formation / lymphocyte migration into lymphoid organs / membrane protein proteolysis ...glial cell-derived neurotrophic factor receptor activity / glial cell-derived neurotrophic factor receptor binding / glial cell-derived neurotrophic factor receptor signaling pathway / Peyer's patch morphogenesis / positive regulation of metanephric glomerulus development / posterior midgut development / ureter maturation / embryonic epithelial tube formation / lymphocyte migration into lymphoid organs / membrane protein proteolysis / positive regulation of peptidyl-serine phosphorylation of STAT protein / positive regulation of neuron maturation / neuron cell-cell adhesion / enteric nervous system development / nerve development / 神経 / plasma membrane protein complex / neuron maturation / NCAM1 interactions / positive regulation of extrinsic apoptotic signaling pathway in absence of ligand / positive regulation of cell adhesion mediated by integrin / 神経堤 / ureteric bud development / response to pain / extrinsic component of membrane / regulation of axonogenesis / homophilic cell adhesion via plasma membrane adhesion molecules / positive regulation of cell size / RET signaling / regulation of cell adhesion / cellular response to retinoic acid / NPAS4 regulates expression of target genes / transmembrane receptor protein tyrosine kinase activity / 軸索誘導 / growth factor activity / positive regulation of neuron projection development / receptor tyrosine kinase binding / 受容体型チロシンキナーゼ / neuron projection development / cell surface receptor protein tyrosine kinase signaling pathway / activation of cysteine-type endopeptidase activity involved in apoptotic process / 分裂促進因子活性化タンパク質キナーゼ / retina development in camera-type eye / signaling receptor activity / nervous system development / RAF/MAP kinase cascade / protein tyrosine kinase activity / positive regulation of MAPK cascade / positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction / エンドソーム / receptor complex / endosome membrane / positive regulation of cell migration / response to xenobiotic stimulus / 神経繊維 / external side of plasma membrane / signaling receptor binding / protein phosphorylation / 樹状突起 / neuronal cell body / calcium ion binding / positive regulation of gene expression / positive regulation of DNA-templated transcription / シグナル伝達 / extracellular region / ATP binding / 細胞膜 類似検索 - 分子機能 | ||||||||||||||||||
生物種 | Homo sapiens (ヒト) | ||||||||||||||||||
手法 | 電子顕微鏡法 / 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 6.3 Å | ||||||||||||||||||
データ登録者 | Bigalke, J.M. / Aibara, S. / Sandmark, J. / Amunts, A. | ||||||||||||||||||
資金援助 | スウェーデン, 5件
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引用 | ジャーナル: Sci Adv / 年: 2019 タイトル: Cryo-EM structure of the activated RET signaling complex reveals the importance of its cysteine-rich domain. 著者: Janna M Bigalke / Shintaro Aibara / Robert Roth / Göran Dahl / Euan Gordon / Sarah Dorbéus / A Amunts / Jenny Sandmark / 要旨: Signaling through the receptor tyrosine kinase RET is essential during normal development. Both gain- and loss-of-function mutations are involved in a variety of diseases, yet the molecular details ...Signaling through the receptor tyrosine kinase RET is essential during normal development. Both gain- and loss-of-function mutations are involved in a variety of diseases, yet the molecular details of receptor activation have remained elusive. We have reconstituted the complete extracellular region of the RET signaling complex together with Neurturin (NRTN) and GFRα2 and determined its structure at 5.7-Å resolution by cryo-EM. The proteins form an assembly through RET-GFRα2 and RET-NRTN interfaces. Two key interaction points required for RET extracellular domain binding were observed: (i) the calcium-binding site in RET that contacts GFRα2 domain 3 and (ii) the RET cysteine-rich domain interaction with NRTN. The structure highlights the importance of the RET cysteine-rich domain and allows proposition of a model to explain how complex formation leads to RET receptor dimerization and its activation. This provides a framework for targeting RET activity and for further exploration of mechanisms underlying neurological diseases. | ||||||||||||||||||
履歴 |
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-構造の表示
ムービー |
ムービービューア |
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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 | 6gl7.cif.gz | 563.3 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb6gl7.ent.gz | 477.2 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 6gl7.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/gl/6gl7 ftp://data.pdbj.org/pub/pdb/validation_reports/gl/6gl7 | 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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1 |
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-要素
#1: タンパク質 | 分子量: 11706.406 Da / 分子数: 2 / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 遺伝子: NRTN / 発現宿主: Escherichia coli (大腸菌) / 参照: UniProt: Q99748 #2: タンパク質 | 分子量: 47635.629 Da / 分子数: 2 / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 遺伝子: GFRA2, GDNFRB, RETL2, TRNR2 発現宿主: Cricetulus griseus (モンゴルキヌゲネズミ) 参照: UniProt: O00451 #3: タンパク質 | 分子量: 68651.352 Da / 分子数: 2 / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 遺伝子: RET, CDHF12, CDHR16, PTC, RET51 発現宿主: Cricetulus griseus (モンゴルキヌゲネズミ) 参照: UniProt: P07949, 受容体型チロシンキナーゼ |
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-実験情報
-実験
実験 | 手法: 電子顕微鏡法 |
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EM実験 | 試料の集合状態: PARTICLE / 3次元再構成法: 単粒子再構成法 |
-試料調製
構成要素 |
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分子量 | 値: 0.254 MDa / 実験値: NO | ||||||||||||||||||||||||||||||
由来(天然) |
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由来(組換発現) |
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緩衝液 | pH: 8 | ||||||||||||||||||||||||||||||
試料 | 包埋: NO / シャドウイング: NO / 染色: NO / 凍結: YES | ||||||||||||||||||||||||||||||
急速凍結 | 凍結剤: ETHANE |
-電子顕微鏡撮影
実験機器 | モデル: Titan Krios / 画像提供: FEI Company |
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顕微鏡 | モデル: FEI TITAN KRIOS |
電子銃 | 電子線源: FIELD EMISSION GUN / 加速電圧: 300 kV / 照射モード: FLOOD BEAM |
電子レンズ | モード: BRIGHT FIELDBright-field microscopy |
撮影 | 電子線照射量: 38 e/Å2 / 検出モード: COUNTING フィルム・検出器のモデル: GATAN K2 QUANTUM (4k x 4k) |
-解析
EMソフトウェア |
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CTF補正 | タイプ: PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||||||||||||||||
対称性 | 点対称性: C2 (2回回転対称) | ||||||||||||||||||
3次元再構成 | 解像度: 6.3 Å / 解像度の算出法: FSC 0.143 CUT-OFF / 粒子像の数: 186903 / 対称性のタイプ: POINT | ||||||||||||||||||
原子モデル構築 | B value: 220 / プロトコル: FLEXIBLE FIT / 空間: REAL |