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- PDB-1y19: Structural basis for phosphatidylinositol phosphate kinase type I... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1y19 | ||||||
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Title | Structural basis for phosphatidylinositol phosphate kinase type I-gamma binding to talin at focal adhesions | ||||||
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![]() | STRUCTURAL PROTEIN / SIGNALING PROTEIN / FOCAL ADHESION / FERM DOMAIN / CYTOSKELETON / NPXY MOTIF / PTB DOMAIN | ||||||
Function / homology | ![]() 1-phosphatidylinositol-4-phosphate 5-kinase / presynaptic endocytic zone membrane / 1-phosphatidylinositol-4-phosphate 5-kinase activity / GRB2:SOS provides linkage to MAPK signaling for Integrins / Integrin signaling / Smooth Muscle Contraction / p130Cas linkage to MAPK signaling for integrins / SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion / MAP2K and MAPK activation / Synthesis of PIPs at the plasma membrane ...1-phosphatidylinositol-4-phosphate 5-kinase / presynaptic endocytic zone membrane / 1-phosphatidylinositol-4-phosphate 5-kinase activity / GRB2:SOS provides linkage to MAPK signaling for Integrins / Integrin signaling / Smooth Muscle Contraction / p130Cas linkage to MAPK signaling for integrins / SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion / MAP2K and MAPK activation / Synthesis of PIPs at the plasma membrane / uropod / LIM domain binding / Platelet degranulation / phosphatidylinositol metabolic process / PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling / vinculin binding / Clathrin-mediated endocytosis / integrin activation / phosphatidylinositol biosynthetic process / cell-substrate junction assembly / regulation of postsynaptic neurotransmitter receptor internalization / regulation of synaptic vesicle endocytosis / cortical actin cytoskeleton organization / phosphatidylserine binding / exocytosis / phosphatidylinositol phosphate biosynthetic process / phagocytic cup / phagocytosis / ruffle / phosphatidylinositol binding / axonogenesis / integrin-mediated signaling pathway / adherens junction / structural constituent of cytoskeleton / platelet aggregation / ruffle membrane / cell-cell adhesion / chemotaxis / actin filament binding / integrin binding / postsynaptic density / cytoskeleton / endosome membrane / phosphorylation / focal adhesion / glutamatergic synapse / cell surface / ATP binding / plasma membrane / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | de Pereda, J.M. / Wegener, K. / Santelli, E. / Bate, N. / Ginsberg, M.H. / Critchley, D.R. / Campbell, I.D. / Liddington, R.C. | ||||||
![]() | ![]() Title: Structural bases for phosphatidylinositol phosphate kinase type I-gamma binding to talin at focal adhesions Authors: de Pereda, J.M. / Wegener, K. / Santelli, E. / Bate, N. / Ginsberg, M.H. / Critchley, D.R. / Campbell, I.D. / Liddington, R.C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 253.3 KB | Display | ![]() |
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PDB format | ![]() | 215 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 467.4 KB | Display | ![]() |
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Full document | ![]() | 494.6 KB | Display | |
Data in XML | ![]() | 28.1 KB | Display | |
Data in CIF | ![]() | 43 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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3 | ![]()
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4 | ![]()
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5 | ![]()
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6 | ![]()
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Unit cell |
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Components
#1: Protein/peptide | Mass: 1711.829 Da / Num. of mol.: 6 / Fragment: C-TERMINAL REGION Source method: isolated from a genetically manipulated source Details: chimera of chain A/B, C/D, E/F, G/H, I/J, K/L / Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Protein | Mass: 23281.965 Da / Num. of mol.: 6 / Fragment: F2 AND F3 SUBDOMAINS OF THE FERM DOMAIN Source method: isolated from a genetically manipulated source Details: chimera of chain A/B, C/D, E/F, G/H, I/J, K/L / Source: (gene. exp.) ![]() ![]() Description: FORMS CHIMERA WITH PHOSPHATIDYL INOSITOL KINASE TYPE 1 GAMMA AT THE C-TERMINUS Gene: Tln1, Tln / Plasmid: pET15b / Species (production host): Escherichia coli / Production host: ![]() ![]() #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.51 Å3/Da / Density % sol: 52.2 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion / pH: 6.2 Details: 0.1 M Na/K phosphte buffer, 35% MPD, pH 6.2, VAPOR DIFFUSION, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Feb 27, 2003 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.008 Å / Relative weight: 1 |
Reflection | Resolution: 2.6→50 Å / Num. obs: 43284 / % possible obs: 96.7 % / Observed criterion σ(I): -4 / Redundancy: 2.4 % / Biso Wilson estimate: 57 Å2 / Rmerge(I) obs: 0.058 / Net I/σ(I): 15.2 |
Reflection shell | Resolution: 2.6→2.69 Å / Rmerge(I) obs: 0.459 / Mean I/σ(I) obs: 2.4 / % possible all: 84.4 |
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Processing
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Refinement | Method to determine structure: ![]()
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Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 2.6→30 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.6→2.69 Å /
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