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Yorodumi- PDB-2h7d: Solution structure of the talin F3 domain in complex with a chime... -
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-Basic information
Entry | Database: PDB / ID: 2h7d | ||||||
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Title | Solution structure of the talin F3 domain in complex with a chimeric beta3 integrin-PIP kinase peptide | ||||||
Components |
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Keywords | STRUCTURAL PROTEIN / Protein-peptide complex / alpha helix / beta sheet | ||||||
Function / homology | Function and homology information 1-phosphatidylinositol-4-phosphate 5-kinase / presynaptic endocytic zone membrane / 1-phosphatidylinositol-4-phosphate 5-kinase activity / SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion / Synthesis of PIPs at the plasma membrane / uropod / tube development / regulation of serotonin uptake / positive regulation of adenylate cyclase-inhibiting opioid receptor signaling pathway / alpha9-beta1 integrin-ADAM8 complex ...1-phosphatidylinositol-4-phosphate 5-kinase / presynaptic endocytic zone membrane / 1-phosphatidylinositol-4-phosphate 5-kinase activity / SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion / Synthesis of PIPs at the plasma membrane / uropod / tube development / regulation of serotonin uptake / positive regulation of adenylate cyclase-inhibiting opioid receptor signaling pathway / alpha9-beta1 integrin-ADAM8 complex / regulation of trophoblast cell migration / regulation of postsynaptic neurotransmitter receptor diffusion trapping / phosphatidylinositol metabolic process / alphav-beta3 integrin-vitronectin complex / maintenance of postsynaptic specialization structure / positive regulation of glomerular mesangial cell proliferation / regulation of extracellular matrix organization / platelet alpha granule membrane / PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling / integrin alphav-beta3 complex / negative regulation of lipoprotein metabolic process / Clathrin-mediated endocytosis / alphav-beta3 integrin-PKCalpha complex / fibrinogen binding / glycinergic synapse / alphav-beta3 integrin-HMGB1 complex / vascular endothelial growth factor receptor 2 binding / blood coagulation, fibrin clot formation / negative regulation of lipid transport / negative regulation of low-density lipoprotein receptor activity / phosphatidylinositol biosynthetic process / Elastic fibre formation / cell-substrate junction assembly / regulation of release of sequestered calcium ion into cytosol / mesodermal cell differentiation / alphav-beta3 integrin-IGF-1-IGF1R complex / angiogenesis involved in wound healing / platelet-derived growth factor receptor binding / filopodium membrane / extracellular matrix binding / positive regulation of fibroblast migration / positive regulation of vascular endothelial growth factor receptor signaling pathway / regulation of postsynaptic neurotransmitter receptor internalization / apolipoprotein A-I-mediated signaling pathway / regulation of bone resorption / wound healing, spreading of epidermal cells / apoptotic cell clearance / heterotypic cell-cell adhesion / integrin complex / positive regulation of cell adhesion mediated by integrin / Molecules associated with elastic fibres / cellular response to insulin-like growth factor stimulus / positive regulation of cell-matrix adhesion / cell adhesion mediated by integrin / regulation of synaptic vesicle endocytosis / smooth muscle cell migration / microvillus membrane / phagocytic cup / Syndecan interactions / negative chemotaxis / p130Cas linkage to MAPK signaling for integrins / cellular response to platelet-derived growth factor stimulus / protein disulfide isomerase activity / cell-substrate adhesion / positive regulation of smooth muscle cell migration / exocytosis / activation of protein kinase activity / positive regulation of osteoblast proliferation / TGF-beta receptor signaling activates SMADs / PECAM1 interactions / lamellipodium membrane / phosphatidylinositol phosphate biosynthetic process / GRB2:SOS provides linkage to MAPK signaling for Integrins / negative regulation of macrophage derived foam cell differentiation / negative regulation of lipid storage / platelet-derived growth factor receptor signaling pathway / fibronectin binding / ECM proteoglycans / positive regulation of T cell migration / positive regulation of bone resorption / Integrin cell surface interactions / coreceptor activity / phagocytosis / negative regulation of endothelial cell apoptotic process / positive regulation of substrate adhesion-dependent cell spreading / embryo implantation / ruffle / positive regulation of endothelial cell proliferation / cell adhesion molecule binding / axonogenesis / Integrin signaling / substrate adhesion-dependent cell spreading / cell-matrix adhesion / protein kinase C binding / positive regulation of endothelial cell migration / response to activity / Signal transduction by L1 / integrin-mediated signaling pathway / regulation of actin cytoskeleton organization / adherens junction Similarity search - Function | ||||||
Biological species | Gallus gallus (chicken) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Wegener, K.L. | ||||||
Citation | Journal: CELL(CAMBRIDGE,MASS.) / Year: 2007 Title: Structural basis of integrin activation by talin Authors: Wegener, K.L. / Partridge, A.W. / Han, J. / Pickford, A.R. / Liddington, R.C. / Ginsberg, M.H. / Campbell, I.D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2h7d.cif.gz | 862.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2h7d.ent.gz | 755.6 KB | Display | PDB format |
PDBx/mmJSON format | 2h7d.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/h7/2h7d ftp://data.pdbj.org/pub/pdb/validation_reports/h7/2h7d | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 11475.312 Da / Num. of mol.: 1 / Fragment: F3 domain / Mutation: C336S Source method: isolated from a genetically manipulated source Source: (gene. exp.) Gallus gallus (chicken) / Gene: TLN1, TLN / Plasmid: pGEX-6P2 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: P54939 |
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#2: Protein/peptide | Mass: 4279.835 Da / Num. of mol.: 1 / Source method: obtained synthetically / Details: The peptide was chemically synthesized. / References: UniProt: P05106, UniProt: O70161 |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details |
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Sample conditions | Ionic strength: 100mM NaCl / pH: 6.1 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 Details: The structures are based on a total of 2175 restraints, of which 2015 are NOE-derived distance restraints, 126 dihedral angle restraints and 34 distance restraints from hydrogen bonds. | ||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 20 |