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Structural studies on the synchronization of catalytic centers in glutamate synthase: complex with 2-oxoglutarate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EA0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 277 PEG4000, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.6 73.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 166.521 α = 90 b = 166.521 β = 90 c = 219.874 γ = 90
Symmetry Space Group P 43 21 2
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 2001-06-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.9 ESRF ID14-1
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 2.7 50 98.1 0.088 0.088 4.5 4 83666 83666
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 2.7 2.85 92.1 0.328 2.9 4.2 11378
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1EA0 2.7 12 80245 80245 2026 96.58 0.2359 0.23591 0.23447 0.2314 0.29274 RANDOM 41.202
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] 3.48 3.48 -6.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 26.127 r_dihedral_angle_1_deg 9.777 r_scangle_it 4.754 r_scbond_it 2.998 r_angle_refined_deg 2.196 r_mcangle_it 1.77 r_mcbond_it 0.96 r_symmetry_vdw_refined 0.378 r_nbd_refined 0.314 r_xyhbond_nbd_refined 0.225
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 26.127 r_dihedral_angle_1_deg 9.777 r_scangle_it 4.754 r_scbond_it 2.998 r_angle_refined_deg 2.196 r_mcangle_it 1.77 r_mcbond_it 0.96 r_symmetry_vdw_refined 0.378 r_nbd_refined 0.314 r_xyhbond_nbd_refined 0.225 r_symmetry_hbond_refined 0.203 r_chiral_restr 0.164 r_bond_refined_d 0.02 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_symmetry_vdw_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11311 Nucleic Acid Atoms Solvent Atoms 49 Heterogen Atoms 48
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling AMoRE phasing REFMAC refinement CCP4 data scaling