- PDB-4gvd: Crystal Structure of T-cell Lymphoma Invasion and Metastasis-1 PD... -
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基本情報
登録情報
データベース: PDB / ID: 4gvd
タイトル
Crystal Structure of T-cell Lymphoma Invasion and Metastasis-1 PDZ in complex with Syndecan1 Peptide
要素
Syndecan-1Syndecan 1
T-lymphoma invasion and metastasis-inducing protein 1
キーワード
SIGNALING PROTEIN / conformational change during phosphorylation / different binding pocket from phosphorylated sydencan1 / scaffold signaling protein for cell adhesion and cell junction / sydencan1 N-terminal Thr dansylation
機能・相同性
機能・相同性情報
myoblast development / positive regulation of Schwann cell chemotaxis / striated muscle cell development / regulation of non-canonical Wnt signaling pathway / regulation of dopaminergic neuron differentiation / Defective B3GALT6 causes EDSP2 and SEMDJL1 / Defective B4GALT7 causes EDS, progeroid type / Defective B3GAT3 causes JDSSDHD / Defective EXT2 causes exostoses 2 / Defective EXT1 causes exostoses 1, TRPS2 and CHDS ...myoblast development / positive regulation of Schwann cell chemotaxis / striated muscle cell development / regulation of non-canonical Wnt signaling pathway / regulation of dopaminergic neuron differentiation / Defective B3GALT6 causes EDSP2 and SEMDJL1 / Defective B4GALT7 causes EDS, progeroid type / Defective B3GAT3 causes JDSSDHD / Defective EXT2 causes exostoses 2 / Defective EXT1 causes exostoses 1, TRPS2 and CHDS / A tetrasaccharide linker sequence is required for GAG synthesis / extrinsic component of postsynaptic density membrane / HS-GAG biosynthesis / HS-GAG degradation / positive regulation of extracellular exosome assembly / Activated NTRK2 signals through CDK5 / Sertoli cell development / regulation of epithelial to mesenchymal transition / positive regulation of dendritic spine morphogenesis / regulation of insulin secretion involved in cellular response to glucose stimulus / regulation of modification of postsynaptic actin cytoskeleton / cell-cell contact zone / positive regulation of exosomal secretion / protein localization to membrane / cardiac muscle hypertrophy / activation of GTPase activity / cargo receptor activity / Wnt signaling pathway, planar cell polarity pathway / regulation of small GTPase mediated signal transduction / ureteric bud development / main axon / neuron projection extension / Syndecan interactions / positive regulation of axonogenesis / Other interleukin signaling / small GTPase-mediated signal transduction / NRAGE signals death through JNK / Rac protein signal transduction / CDC42 GTPase cycle / EPH-ephrin mediated repulsion of cells / RHOA GTPase cycle / canonical Wnt signaling pathway / ephrin receptor signaling pathway / RAC2 GTPase cycle / RAC3 GTPase cycle / positive regulation of epithelial to mesenchymal transition / axonal growth cone / Retinoid metabolism and transport / response to glucocorticoid / response to cAMP / EPHB-mediated forward signaling / RAC1 GTPase cycle / lysosomal lumen / receptor-mediated endocytosis / cell-matrix adhesion / regulation of ERK1 and ERK2 cascade / guanyl-nucleotide exchange factor activity / response to cocaine / Cell surface interactions at the vascular wall / response to hydrogen peroxide / receptor tyrosine kinase binding / response to toxic substance / ruffle membrane / kinase binding / Golgi lumen / response to calcium ion / G alpha (12/13) signalling events / 遊走 / cell-cell junction / positive regulation of protein binding / microtubule binding / protein-containing complex assembly / 微小管 / 樹状突起スパイン / Attachment and Entry / positive regulation of cell migration / external side of plasma membrane / neuronal cell body / シナプス / glutamatergic synapse / lipid binding / positive regulation of cell population proliferation / 細胞膜 / protein-containing complex / extracellular exosome / identical protein binding / 細胞膜 / 細胞質基質 類似検索 - 分子機能
解像度: 1.85→50.946 Å / Cor.coef. Fo:Fc: 0.956 / Cor.coef. Fo:Fc free: 0.943 / SU B: 3.956 / SU ML: 0.121 / 交差検証法: THROUGHOUT / ESU R: 0.184 / ESU R Free: 0.161 / 立体化学のターゲット値: MAXIMUM LIKELIHOOD / 詳細: HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT
Rfactor
反射数
%反射
Selection details
Rfree
0.24302
655
4.9 %
RANDOM
Rwork
0.19604
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-
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obs
0.19848
12590
99.57 %
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all
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12590
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-
溶媒の処理
イオンプローブ半径: 0.8 Å / 減衰半径: 0.8 Å / VDWプローブ半径: 1.2 Å / 溶媒モデル: MASK