☰ Navigation Tabs
Crystal Structure of the GluR5 Ligand Binding Core with UBP302 At 1.87 Angstroms Resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2F34 in process UBP310
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.9 293 20% PEG 1K
100 mM Tris
5 mM UBP302, pH 8.9, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.63 53.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.876 α = 90 b = 97.907 β = 90 c = 128.347 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH Confocal mirrors 2005-08-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-002
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 1.86 40 98.6 0.057 16.3 7.1 52211 52211 1 1 28.08
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 1.86 1.93 85.7 0.43 6.4
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT in process UBP310 1.87 38.92 48777 48777 2595 99.8 0.19273 0.19273 0.19125 0.1953 0.22036 0.1949 RANDOM 18.676
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] 0.27 -0.07 -0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.35 r_dihedral_angle_4_deg 11.973 r_dihedral_angle_3_deg 9.931 r_dihedral_angle_1_deg 2.542 r_scangle_it 1.574 r_mcangle_it 1.554 r_angle_refined_deg 1.457 r_scbond_it 1.161 r_mcbond_it 1.034 r_nbtor_refined 0.321
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.35 r_dihedral_angle_4_deg 11.973 r_dihedral_angle_3_deg 9.931 r_dihedral_angle_1_deg 2.542 r_scangle_it 1.574 r_mcangle_it 1.554 r_angle_refined_deg 1.457 r_scbond_it 1.161 r_mcbond_it 1.034 r_nbtor_refined 0.321 r_symmetry_vdw_refined 0.306 r_symmetry_hbond_refined 0.288 r_nbd_refined 0.242 r_xyhbond_nbd_refined 0.208 r_chiral_restr 0.114 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 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 4014 Nucleic Acid Atoms Solvent Atoms 416 Heterogen Atoms 82
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing