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- PDB-1e7v: Structure determinants of phosphoinositide 3-kinase inhibition by... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1e7v | ||||||
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Title | Structure determinants of phosphoinositide 3-kinase inhibition by wortmannin, LY294002, quercetin, myricetin and staurosporine | ||||||
![]() | PHOSPHATIDYLINOSITOL 3-KINASE CATALYTIC SUBUNIT | ||||||
![]() | TRANSFERASE / SECONDARY MESSENGER GENERATION PI3K / PI 3K / LY294002 | ||||||
Function / homology | ![]() phosphatidylinositol-4-phosphate 3-kinase / phosphatidylinositol 3-kinase complex, class IB / phosphatidylinositol 3-kinase complex, class IA / 1-phosphatidylinositol-4-phosphate 3-kinase activity / 1-phosphatidylinositol-4,5-bisphosphate 3-kinase activity / phosphatidylinositol-4,5-bisphosphate 3-kinase / phosphatidylinositol 3-kinase / phosphatidylinositol-3-phosphate biosynthetic process / 1-phosphatidylinositol-3-kinase activity / immune system process ...phosphatidylinositol-4-phosphate 3-kinase / phosphatidylinositol 3-kinase complex, class IB / phosphatidylinositol 3-kinase complex, class IA / 1-phosphatidylinositol-4-phosphate 3-kinase activity / 1-phosphatidylinositol-4,5-bisphosphate 3-kinase activity / phosphatidylinositol-4,5-bisphosphate 3-kinase / phosphatidylinositol 3-kinase / phosphatidylinositol-3-phosphate biosynthetic process / 1-phosphatidylinositol-3-kinase activity / immune system process / phosphatidylinositol-mediated signaling / phosphatidylinositol phosphate biosynthetic process / endocytosis / chemotaxis / cell migration / angiogenesis / non-specific serine/threonine protein kinase / inflammatory response / phosphorylation / protein serine kinase activity / protein serine/threonine kinase activity / ATP binding / plasma membrane / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Walker, E.H. / Pacold, M.E. / Perisic, O. / Stephens, L. / Hawkins, P.T. / Wymann, M.P. / Williams, R.L. | ||||||
![]() | ![]() Title: Structural determinants of phosphoinositide 3-kinase inhibition by wortmannin, LY294002, quercetin, myricetin, and staurosporine. Authors: Walker, E.H. / Pacold, M.E. / Perisic, O. / Stephens, L. / Hawkins, P.T. / Wymann, M.P. / Williams, R.L. #1: Journal: Nature / Year: 1999 Title: Structural Insights Into Phosphoinositide 3-Kinase Catalysis and Signalling Authors: Walker, E.H. / Perisic, O. / Ried, C. / Stephens, L. / Williams, R.L. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 189.9 KB | Display | ![]() |
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PDB format | ![]() | 147.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 790.9 KB | Display | ![]() |
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Full document | ![]() | 825.5 KB | Display | |
Data in XML | ![]() | 36 KB | Display | |
Data in CIF | ![]() | 49.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1e7uC ![]() 1e8wC ![]() 1e8xC ![]() 1e8yC ![]() 1e8zC ![]() 1e90C ![]() 1qmm S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 109952.555 Da / Num. of mol.: 1 / Fragment: PI3-KINASE P110 SUBUNIT GAMMA, RESIDUES 144-1102 / Mutation: YES Source method: isolated from a genetically manipulated source Details: LY294002 / Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Chemical | ChemComp-LY2 / |
#3: Water | ChemComp-HOH / |
Sequence details | FUTHER DATA COLLECTION AND REFINEMENT AFTER THE ORIGINAL DEPOSITION OF 1QMM SUGGESTED A REGISTER ...FUTHER DATA COLLECTION |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.788 Å3/Da / Density % sol: 55.92 % | ||||||||||||||||||||
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Crystal grow | pH: 7.25 / Details: 14% PEG 4000, 0.2 M LI2SO4, 0.1 M TRIS PH 7.25 | ||||||||||||||||||||
Crystal grow | *PLUS Temperature: 17 ℃ / pH: 7.2 / Method: vapor diffusion, hanging drop / Details: used hair seeding | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Sep 15, 1999 / Details: BENT MIRROR |
Radiation | Monochromator: DIAMOND C(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.93 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→60.84 Å / Num. obs: 33528 / % possible obs: 85.4 % / Observed criterion σ(I): 0 / Redundancy: 3.3 % / Biso Wilson estimate: 50.2 Å2 / Rmerge(I) obs: 0.07 / Net I/σ(I): 20.49 |
Reflection shell | Resolution: 2.4→2.53 Å / Redundancy: 1.5 % / Mean I/σ(I) obs: 1.57 / Rsym value: 0.375 / % possible all: 39.2 |
Reflection | *PLUS Num. measured all: 110067 / Rmerge(I) obs: 0.07 |
Reflection shell | *PLUS % possible obs: 39.2 % |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1QMM ![]() 1qmm Resolution: 2.4→60.84 Å / Rfactor Rfree error: 0.008 / Data cutoff high absF: 2111625.52 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 55.5792 Å2 / ksol: 0.339735 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 77.8 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.4→60.84 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.4→2.55 Å / Rfactor Rfree error: 0.038 / Total num. of bins used: 6
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Xplor file |
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Software | *PLUS Name: CNS / Version: 1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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