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Crystal Structure of the GluR5 Ligand Binding Core Dimer with Glutamate At 2.1 Angstroms Resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TXF PDB 1TXf
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.1 293 1.75 M Ammonium Sulfate
100 mM HEPES
10 mM glutamic acid, pH 7.1, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.2 44.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.694 α = 90 b = 73.784 β = 99.74 c = 115.918 γ = 90
Symmetry Space Group P 1 21 1
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 2004-10-12 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 2.1 30 99.8 0.084 12.3 3.4 53310 53310 2.11 1
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 2.1 2.18 100 0.344 3.62
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 1TXf 2.11 29.87 53310 53310 6016 100 0.19124 0.19124 0.18562 0.24111 0.2569 RANDOM 28.726
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] -0.13 0.37 0.14 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.596 r_dihedral_angle_4_deg 13.914 r_dihedral_angle_3_deg 11.392 r_dihedral_angle_1_deg 2.689 r_mcangle_it 2.323 r_scangle_it 2.208 r_angle_refined_deg 1.839 r_mcbond_it 1.529 r_scbond_it 1.51 r_symmetry_hbond_refined 0.326
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.596 r_dihedral_angle_4_deg 13.914 r_dihedral_angle_3_deg 11.392 r_dihedral_angle_1_deg 2.689 r_mcangle_it 2.323 r_scangle_it 2.208 r_angle_refined_deg 1.839 r_mcbond_it 1.529 r_scbond_it 1.51 r_symmetry_hbond_refined 0.326 r_nbtor_refined 0.322 r_symmetry_vdw_refined 0.291 r_nbd_refined 0.238 r_xyhbond_nbd_refined 0.227 r_chiral_restr 0.144 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 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 8008 Nucleic Acid Atoms Solvent Atoms 439 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing