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- PDB-3ilt: Crystal structure of the AMPA subunit GluR2 bound to the alloster... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3ilt | ||||||
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Title | Crystal structure of the AMPA subunit GluR2 bound to the allosteric modulator, trichlormethiazide | ||||||
![]() | Glutamate receptor 2![]() | ||||||
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Function / homology | ![]() spine synapse / dendritic spine neck / dendritic spine head / Activation of AMPA receptors / perisynaptic space / AMPA glutamate receptor activity / Trafficking of GluR2-containing AMPA receptors / response to lithium ion / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() ![]() | ||||||
![]() | Ahmed, A.H. / Ptak, C.P. / Oswald, R.E. | ||||||
![]() | ![]() Title: Probing the allosteric modulator binding site of GluR2 with thiazide derivatives Authors: Ptak, C.P. / Ahmed, A.H. / Oswald, R.E. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 163.4 KB | Display | ![]() |
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PDB format | ![]() | 128.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 3ijoC ![]() 3ijxC ![]() 3ik6C ![]() 3il1C ![]() 3iluC ![]() 3dp6S C: citing same article ( S: Starting model for refinement |
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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: 28808.297 Da / Num. of mol.: 3 / Fragment: S1S2 binding domain / Mutation: N242S Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() #2: Chemical | ![]() #3: Chemical | ChemComp-ZN / #4: Chemical | #5: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.23 Å3/Da / Density % sol: 44.72 % |
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Crystal grow![]() | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 16-18 PEG8K, 0.1 M Na Cacodylate, 0.1-0.15 zinc acetate, pH 6.5, vapor diffusion, hanging drop, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Dec 23, 2008 |
Radiation | Monochromator: RH COATED SI / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.2→50 Å / Num. obs: 43133 / % possible obs: 99.9 % / Observed criterion σ(F): 0 / Observed criterion σ(I): -3 / Redundancy: 5.1 % / Rmerge(I) obs: 0.11 / Rsym value: 0.11 / Χ2: 1.432 / Net I/σ(I): 6.3 |
Reflection shell | Resolution: 2.2→2.24 Å / Redundancy: 5.1 % / Rmerge(I) obs: 0.618 / Mean I/σ(I) obs: 2.154 / Num. unique all: 2086 / Rsym value: 0.618 / Χ2: 0.88 / % possible all: 100 |
-Phasing
Phasing![]() | Method: ![]() |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: PDB ENTRY 3dp6 Resolution: 2.107→21.234 Å / Occupancy max: 1 / Occupancy min: 1 / FOM work R set: 0.8 / SU ML: 0.35 / Isotropic thermal model: Isotropic / Cross valid method: THROUGHOUT / σ(F): 0.83 / σ(I): 0 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 49.762 Å2 / ksol: 0.437 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 89.76 Å2 / Biso mean: 43.215 Å2 / Biso min: 6.18 Å2
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Refinement step | Cycle: LAST / Resolution: 2.107→21.234 Å
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Refine LS restraints |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Total num. of bins used: 14
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