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Crystal structure of the GLUR2 ligand binding core (HS1S2J) in complex with CNQX at 2.5 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FTJ PDB ENTRY 1FTJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 40 mM Sodium citrate, 10 mM Ammonium sulfate, 1% PEG 400, pH 6.5, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.73 54.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.582 α = 81.85 b = 97.631 β = 89.08 c = 100.97 γ = 77.89
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315 KOHZU: DOUBLE CRYSTAL SI(111) 2007-07-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.4 39.9 96.8 92349
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.49 0.426 1.87
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1FTJ 2.5 39.9 82433 4133 96.82 0.25598 0.25455 0.2526 0.28313 0.2849 RANDOM 17.383
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 3.15 -0.15 3.41 -1.93 0.03 -1.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.619 r_dihedral_angle_3_deg 13.743 r_dihedral_angle_4_deg 13.129 r_dihedral_angle_1_deg 6.094 r_angle_refined_deg 0.879 r_angle_other_deg 0.773 r_scangle_it 0.672 r_scbond_it 0.396 r_mcangle_it 0.306 r_symmetry_vdw_other 0.283
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.619 r_dihedral_angle_3_deg 13.743 r_dihedral_angle_4_deg 13.129 r_dihedral_angle_1_deg 6.094 r_angle_refined_deg 0.879 r_angle_other_deg 0.773 r_scangle_it 0.672 r_scbond_it 0.396 r_mcangle_it 0.306 r_symmetry_vdw_other 0.283 r_nbd_other 0.182 r_nbd_refined 0.173 r_mcbond_it 0.173 r_nbtor_refined 0.17 r_symmetry_vdw_refined 0.158 r_xyhbond_nbd_refined 0.128 r_symmetry_hbond_refined 0.121 r_nbtor_other 0.081 r_chiral_restr 0.049 r_mcbond_other 0.026 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 15989 Nucleic Acid Atoms Solvent Atoms 567 Heterogen Atoms 136
Software Software Software Name Purpose PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling