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X-ray structure of iGluR4 flip ligand-binding core (S1S2) in complex with (S)-glutamate at 1.40A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FTJ 1FTJ (poly-Ala)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 280 PEG4000, Acetate, (NH4)2SO4, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 280K
Crystal Properties Matthews coefficient Solvent content 2.84 56.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.425 α = 90 b = 105.231 β = 97.24 c = 66.538 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 110 CCD MAR CCD 165 mm 2007-06-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-2 1.0412 MAX II I911-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.4 27.778 98.1 0.092 0.092 11.3 3.6 124382 14.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.48 100 0.405 0.405 2.3 3.2 18513
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1FTJ (poly-Ala) 1.4 26.6 124314 123064 1250 98.04 0.167 0.167 0.1747 0.183 0.1931 RANDOM 16.681
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] -0.28 0.23 0.22 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.432 r_dihedral_angle_4_deg 14.843 r_dihedral_angle_3_deg 11.597 r_dihedral_angle_1_deg 5.625 r_sphericity_free 3.534 r_scangle_it 2.799 r_scbond_it 2.049 r_sphericity_bonded 1.756 r_mcangle_it 1.301 r_angle_refined_deg 1.226
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.432 r_dihedral_angle_4_deg 14.843 r_dihedral_angle_3_deg 11.597 r_dihedral_angle_1_deg 5.625 r_sphericity_free 3.534 r_scangle_it 2.799 r_scbond_it 2.049 r_sphericity_bonded 1.756 r_mcangle_it 1.301 r_angle_refined_deg 1.226 r_rigid_bond_restr 1.195 r_mcbond_it 1.123 r_angle_other_deg 0.845 r_mcbond_other 0.308 r_symmetry_vdw_refined 0.246 r_nbd_refined 0.207 r_nbd_other 0.18 r_nbtor_refined 0.176 r_symmetry_vdw_other 0.167 r_symmetry_hbond_refined 0.108 r_xyhbond_nbd_refined 0.107 r_nbtor_other 0.084 r_chiral_restr 0.077 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4068 Nucleic Acid Atoms Solvent Atoms 888 Heterogen Atoms 114
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection MOSFLM data reduction