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Crystal structure of human glutamine synthetase in complex with ADP and phosphate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2D3A PDB ENTRY 2D3A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 277 10% Isopropanol, 200 mM NaCl, 100 mM HEPES, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K, pH 7.50
Crystal Properties Matthews coefficient Solvent content 2.41 49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 177.6 α = 90 b = 122.6 β = 130.6 c = 126.6 γ = 90
Symmetry Space Group C 1 2 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 ADSC QUANTUM 4 FOCUSING: TOROIDAL MIRROR 2006-09-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
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 2.05 40 98.8 0.1205 0.14 3.8 125431
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 2.05 2.15 98.6 0.416 0.485 3.8
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 (Observed) 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 PDB ENTRY 2D3A 2.05 39.25 121373 121373 6388 100 0.162 0.159 0.1649 0.212 0.2133 RANDOM 11.84
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] 0.15 1.01 0.13 1.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.81 r_dihedral_angle_4_deg 17.345 r_dihedral_angle_3_deg 14.792 r_dihedral_angle_1_deg 12.756 r_scangle_it 3.051 r_scbond_it 2.203 r_angle_refined_deg 1.776 r_mcangle_it 1.301 r_mcbond_it 1.096 r_angle_other_deg 1.094
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.81 r_dihedral_angle_4_deg 17.345 r_dihedral_angle_3_deg 14.792 r_dihedral_angle_1_deg 12.756 r_scangle_it 3.051 r_scbond_it 2.203 r_angle_refined_deg 1.776 r_mcangle_it 1.301 r_mcbond_it 1.096 r_angle_other_deg 1.094 r_mcbond_other 0.244 r_symmetry_hbond_refined 0.234 r_nbd_other 0.204 r_nbd_refined 0.203 r_symmetry_vdw_other 0.195 r_xyhbond_nbd_refined 0.187 r_symmetry_vdw_refined 0.182 r_nbtor_refined 0.176 r_chiral_restr 0.118 r_nbtor_other 0.084 r_bond_refined_d 0.019 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14250 Nucleic Acid Atoms Solvent Atoms 1390 Heterogen Atoms 221
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing