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Crystal structure of the GluR6 ligand binding core dimer crosslinked by disulfide bonds between Y490C and L752C at 2.25 Angstroms Resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1S7Y
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 293 Reservoir: 20% isopropanol, 25% PEG 4k, 0.1 M NaCitrate.
Protein: 7-15 mg/ml, 10 mM HEPES, 20 mM NaCl, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.38 48.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.79 α = 90 b = 108.79 β = 90 c = 47.35 γ = 90
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 MARRESEARCH 2005-04-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 0.99997 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.25 40 98.9 0.089 10.1 3.1 26406 26406 1 1 34.6
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 2.25 2.33 100 0.437 2.93 3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 17SY 2.25 40 25130 25130 1276 98.93 0.17528 0.17528 0.17188 0.24447 0.2607 RANDOM 23.671
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] 0.62 0.62 -1.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.967 r_dihedral_angle_4_deg 16.385 r_dihedral_angle_3_deg 16.342 r_dihedral_angle_1_deg 4.892 r_scangle_it 3.607 r_mcangle_it 3.18 r_scbond_it 2.42 r_mcbond_it 2.078 r_angle_refined_deg 1.977 r_nbtor_refined 0.329
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.967 r_dihedral_angle_4_deg 16.385 r_dihedral_angle_3_deg 16.342 r_dihedral_angle_1_deg 4.892 r_scangle_it 3.607 r_mcangle_it 3.18 r_scbond_it 2.42 r_mcbond_it 2.078 r_angle_refined_deg 1.977 r_nbtor_refined 0.329 r_symmetry_hbond_refined 0.319 r_symmetry_vdw_refined 0.281 r_nbd_refined 0.245 r_xyhbond_nbd_refined 0.244 r_chiral_restr 0.123 r_bond_refined_d 0.023 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4042 Nucleic Acid Atoms Solvent Atoms 204 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement SERGUI data collection MAR345 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing