- EMDB-21417: Head region of the closed conformation of the human type 1 insuli... -
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基本情報
登録情報
データベース: EMDB / ID: EMD-21417
タイトル
Head region of the closed conformation of the human type 1 insulin-like growth factor receptor ectodomain in complex with human insulin-like growth factor II.
マップデータ
Head region of the close conformation of the human type 1 insulin-like growth factor receptor ectodomain in complex with human insulin-like growth factor II
試料
複合体: Head region of the close-leg conformation of the human type 1 insulin-like growth factor receptor ectodomain in complex with human insulin-like growth factor II.
複合体: Insulin-like growth factor 1 receptor
タンパク質・ペプチド: Leucine-zippered human type 1 insulin-like growth factor receptor ectodomain
複合体: Insulin-like growth factor II
タンパク質・ペプチド: Insulin-like growth factor II
リガンド: 2-acetamido-2-deoxy-beta-D-glucopyranose
機能・相同性
機能・相同性情報
spongiotrophoblast cell proliferation / cardiac atrium development / positive regulation of skeletal muscle tissue growth / negative regulation of cholangiocyte apoptotic process / negative regulation of muscle cell differentiation / embryonic placenta morphogenesis / regulation of muscle cell differentiation / insulin-like growth factor receptor activity / positive regulation of steroid hormone biosynthetic process / protein kinase complex ...spongiotrophoblast cell proliferation / cardiac atrium development / positive regulation of skeletal muscle tissue growth / negative regulation of cholangiocyte apoptotic process / negative regulation of muscle cell differentiation / embryonic placenta morphogenesis / regulation of muscle cell differentiation / insulin-like growth factor receptor activity / positive regulation of steroid hormone biosynthetic process / protein kinase complex / Signaling by Type 1 Insulin-like Growth Factor 1 Receptor (IGF1R) / protein transporter activity / IRS-related events triggered by IGF1R / insulin-like growth factor binding / genomic imprinting / negative regulation of muscle cell apoptotic process / cellular response to progesterone stimulus / positive regulation of DNA metabolic process / positive regulation of organ growth / protein localization to nuclear periphery / FCERI mediated MAPK activation / cellular response to zinc ion starvation / cellular response to aldosterone / Activation of the AP-1 family of transcription factors / response to amino acid starvation / mediator complex binding / negative regulation of ribosomal protein gene transcription by RNA polymerase II / positive regulation of cellular response to amino acid starvation / exocrine pancreas development / insulin receptor complex / cellular response to testosterone stimulus / negative regulation of hepatocyte apoptotic process / insulin-like growth factor I binding / positive regulation of multicellular organism growth / insulin receptor activity / transcytosis / nitrogen catabolite activation of transcription from RNA polymerase II promoter / alphav-beta3 integrin-IGF-1-IGF1R complex / response to alkaloid / Oxidative Stress Induced Senescence / cellular response to angiotensin / positive regulation of protein-containing complex disassembly / positive regulation of vascular endothelial cell proliferation / dendritic spine maintenance / cellular response to insulin-like growth factor stimulus / response to L-glutamate / insulin binding / negative regulation of MAPK cascade / establishment of cell polarity / transmembrane receptor protein tyrosine kinase activator activity / positive regulation of activated T cell proliferation / positive regulation of axon regeneration / amyloid-beta clearance / positive regulation of osteoblast proliferation / positive regulation of cytokinesis / TFIID-class transcription factor complex binding / Respiratory syncytial virus (RSV) attachment and entry / regulation of JNK cascade / positive regulation of cell division / insulin receptor substrate binding / estrous cycle / positive regulation of glycogen biosynthetic process / G-protein alpha-subunit binding / response to vitamin E / embryonic placenta development / positive regulation of transcription initiation by RNA polymerase II / SHC-related events triggered by IGF1R / positive regulation of RNA polymerase II transcription preinitiation complex assembly / phosphatidylinositol 3-kinase binding / amino acid biosynthetic process / positive regulation of insulin receptor signaling pathway / peptidyl-tyrosine autophosphorylation / cellular response to transforming growth factor beta stimulus / striated muscle cell differentiation / T-tubule / cellular response to amino acid starvation / protein serine/threonine kinase activator activity / positive regulation of mitotic nuclear division / cellular response to dexamethasone stimulus / cerebellum development / axonogenesis / phosphatidylinositol 3-kinase/protein kinase B signal transduction / insulin-like growth factor receptor signaling pathway / platelet alpha granule lumen / caveola / cellular response to estradiol stimulus / hippocampus development / cellular response to glucose stimulus / animal organ morphogenesis / positive regulation of smooth muscle cell proliferation / insulin-like growth factor receptor binding / growth factor activity / response to nicotine / insulin receptor binding / hormone activity / receptor protein-tyrosine kinase / cellular response to mechanical stimulus / osteoblast differentiation / RNA polymerase II transcription regulator complex / cellular response to amyloid-beta 類似検索 - 分子機能
Insulin-like growth factor II E-peptide, C-terminal / Insulin-like growth factor II / Insulin-like growth factor II E-peptide / Insulin-like growth factor / Tyrosine-protein kinase, insulin-like receptor / Basic region leucine zipper / Basic-leucine zipper (bZIP) domain signature. / Basic-leucine zipper (bZIP) domain profile. / basic region leucin zipper / Basic-leucine zipper domain superfamily ...Insulin-like growth factor II E-peptide, C-terminal / Insulin-like growth factor II / Insulin-like growth factor II E-peptide / Insulin-like growth factor / Tyrosine-protein kinase, insulin-like receptor / Basic region leucine zipper / Basic-leucine zipper (bZIP) domain signature. / Basic-leucine zipper (bZIP) domain profile. / basic region leucin zipper / Basic-leucine zipper domain superfamily / Basic-leucine zipper domain / Tyrosine-protein kinase, receptor class II, conserved site / Receptor tyrosine kinase class II signature. / Insulin family / Insulin/IGF/Relaxin family / Insulin, conserved site / Insulin family signature. / Insulin-like / Insulin / insulin-like growth factor / relaxin family. / Insulin-like superfamily / Receptor L-domain / Furin-like cysteine-rich domain / Receptor L-domain superfamily / Furin-like cysteine rich region / Receptor L domain / Furin-like repeat / Furin-like repeats / Growth factor receptor cysteine-rich domain superfamily / Fibronectin type III domain / Fibronectin type 3 domain / Fibronectin type-III domain profile. / Fibronectin type III / Fibronectin type III superfamily / Tyrosine-protein kinase, catalytic domain / Tyrosine kinase, catalytic domain / Tyrosine protein kinases specific active-site signature. / Tyrosine-protein kinase, active site / Protein tyrosine and serine/threonine kinase / Serine-threonine/tyrosine-protein kinase, catalytic domain / Protein kinase, ATP binding site / Protein kinases ATP-binding region signature. / Immunoglobulin-like fold / Protein kinase domain profile. / Protein kinase domain / Protein kinase-like domain superfamily 類似検索 - ドメイン・相同性
Insulin-like growth factor II / General control transcription factor GCN4 / Insulin-like growth factor 1 receptor 類似検索 - 構成要素
National Health and Medical Research Council (NHMRC, Australia)
APP1128553
オーストラリア
Wellcome Trust
209407/Z/17/
英国
引用
ジャーナル: Structure / 年: 2020 タイトル: How IGF-II Binds to the Human Type 1 Insulin-like Growth Factor Receptor. 著者: Yibin Xu / Nicholas S Kirk / Hariprasad Venugopal / Mai B Margetts / Tristan I Croll / Jarrod J Sandow / Andrew I Webb / Carlie A Delaine / Briony E Forbes / Michael C Lawrence / 要旨: Human type 1 insulin-like growth factor receptor (IGF-1R) signals chiefly in response to the binding of insulin-like growth factor I. Relatively little is known about the role of insulin-like growth ...Human type 1 insulin-like growth factor receptor (IGF-1R) signals chiefly in response to the binding of insulin-like growth factor I. Relatively little is known about the role of insulin-like growth factor II signaling via IGF-1R, despite the affinity of insulin-like growth factor II for IGF-1R being within an order of magnitude of that of insulin-like growth factor I. Here, we describe the cryoelectron microscopy structure of insulin-like growth factor II bound to a leucine-zipper-stabilized IGF-1R ectodomain, determined in two conformations to a maximum average resolution of 3.2 Å. The two conformations differ in the relative separation of their respective points of membrane entry, and comparison with the structure of insulin-like growth factor I bound to IGF-1R reveals long-suspected differences in the way in which the critical C domain of the respective growth factors interact with IGF-1R.
ダウンロード / ファイル: emd_21417.map.gz / 形式: CCP4 / 大きさ: 244.1 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
注釈
Head region of the close conformation of the human type 1 insulin-like growth factor receptor ectodomain in complex with human insulin-like growth factor II
ボクセルのサイズ
X=Y=Z: 1.06 Å
密度
表面レベル
登録者による: 0.5 / ムービー #1: 0.5
最小 - 最大
-0.8693394 - 2.312179
平均 (標準偏差)
0.0010262777 (±0.03197206)
対称性
空間群: 1
詳細
EMDB XML:
マップ形状
Axis order
X
Y
Z
Origin
0
0
0
サイズ
400
400
400
Spacing
400
400
400
セル
A=B=C: 423.99997 Å α=β=γ: 90.0 °
CCP4マップ ヘッダ情報:
mode
Image stored as Reals
Å/pix. X/Y/Z
1.06
1.06
1.06
M x/y/z
400
400
400
origin x/y/z
0.000
0.000
0.000
length x/y/z
424.000
424.000
424.000
α/β/γ
90.000
90.000
90.000
MAP C/R/S
1
2
3
start NC/NR/NS
0
0
0
NC/NR/NS
400
400
400
D min/max/mean
-0.869
2.312
0.001
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添付データ
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試料の構成要素
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全体 : Head region of the close-leg conformation of the human type 1 ins...
全体
名称: Head region of the close-leg conformation of the human type 1 insulin-like growth factor receptor ectodomain in complex with human insulin-like growth factor II.
要素
複合体: Head region of the close-leg conformation of the human type 1 insulin-like growth factor receptor ectodomain in complex with human insulin-like growth factor II.
複合体: Insulin-like growth factor 1 receptor
タンパク質・ペプチド: Leucine-zippered human type 1 insulin-like growth factor receptor ectodomain
複合体: Insulin-like growth factor II
タンパク質・ペプチド: Insulin-like growth factor II
リガンド: 2-acetamido-2-deoxy-beta-D-glucopyranose
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超分子 #1: Head region of the close-leg conformation of the human type 1 ins...
超分子
名称: Head region of the close-leg conformation of the human type 1 insulin-like growth factor receptor ectodomain in complex with human insulin-like growth factor II. タイプ: complex / ID: 1 / 親要素: 0 / 含まれる分子: #1-#2
UCSF Chimera was used for the initial fitting and ISOLDE v 1.03b was using for flexible fitting.
精密化
空間: REAL / プロトコル: FLEXIBLE FIT
得られたモデル
PDB-6vwi: Head region of the closed conformation of the human type 1 insulin-like growth factor receptor ectodomain in complex with human insulin-like growth factor II.