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- PDB-1w2f: Human Inositol (1,4,5)-trisphosphate 3-kinase substituted with se... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1w2f | ||||||
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Title | Human Inositol (1,4,5)-trisphosphate 3-kinase substituted with selenomethionine | ||||||
![]() | INOSITOL-TRISPHOSPHATE 3-KINASE A | ||||||
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Function / homology | ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Gonzalez, B. / Schell, M.J. / Irvine, R.F. / Williams, R.L. | ||||||
![]() | ![]() Title: Structure of a Human Inositol 1,4,5-Trisphosphate 3-Kinase; Substrate Binding Reveals Why It is not a Phosphoinositide 3-Kinase Authors: Gonzalez, B. / Schell, M.J. / Letcher, A.J. / Veprintsev, D.B. / Irvine, R.F. / 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 | ![]() | 123 KB | Display | ![]() |
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PDB format | ![]() | 102.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related 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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Unit cell |
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Components on special symmetry positions |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-0.2322, 0.5509, 0.8016), Vector ![]() |
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Components
#1: Protein | Mass: 31876.359 Da / Num. of mol.: 2 / Fragment: CATALYTIC DOMAIN, RESIDUES 186-461 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() #2: Chemical | ChemComp-SO4 / ![]() #3: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.6 Å3/Da / Density % sol: 47.5 % |
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Crystal grow![]() | pH: 8 / Details: 0.9 M NA CITRATE, 0.1 M NACL, 0.1 M TRIS PH 8. |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Nov 15, 2003 / Details: MIRRORS |
Radiation | Monochromator: DOUBLE CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.8→57.74 Å / Num. obs: 53000 / % possible obs: 94.7 % / Observed criterion σ(I): 2 / Redundancy: 6.15 % / Biso Wilson estimate: 28 Å2 / Rmerge(I) obs: 0.083 / Net I/σ(I): 4.892 |
Reflection shell | Resolution: 1.8→1.9 Å / Redundancy: 5.87 % / Rmerge(I) obs: 0.31 / Mean I/σ(I) obs: 2.35 / % possible all: 84.2 |
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Processing
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Refinement | Method to determine structure![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 23.11 Å2
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Refinement step | Cycle: LAST / Resolution: 1.8→45.17 Å
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Refine LS restraints |
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