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1.95 Angstrom Crystal Structure of Gamma-glutamyl phosphate Reductase from Saccharomonospora viridis.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1O20 PDB ENTRY 1O20
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 295 Protein: 8.3mg/mL, 0.5M Sodium cloride, 0.01M Tris-HCl pH 8.3;
Screen: PACT (B11), 0.2M Calcium chloride, 0.1M MES pH 6.0, 20% (w/v) PEG 6000., VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.45 49.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 265.51 α = 90 b = 55.118 β = 91.18 c = 64.246 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 MARMOSAIC 300 mm CCD Beryllium lenses 2013-01-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97856 APS 21-ID-G
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 1.95 30 99.7 0.068 17.3 3.7 67453 67453 -3 27.8
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 1.95 1.98 100 0.548 2.6 3.8 3341
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1O20 1.95 29.73 64036 64036 3417 99.59 0.17004 0.17004 0.16797 0.174 0.20836 0.2113 RANDOM 27.695
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] -0.38 -0.99 2.86 -2.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.187 r_dihedral_angle_4_deg 14.007 r_dihedral_angle_3_deg 10.243 r_scangle_it 4.673 r_scbond_it 2.965 r_dihedral_angle_1_deg 2.937 r_mcangle_it 1.631 r_angle_refined_deg 1.345 r_mcbond_it 0.956 r_angle_other_deg 0.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.187 r_dihedral_angle_4_deg 14.007 r_dihedral_angle_3_deg 10.243 r_scangle_it 4.673 r_scbond_it 2.965 r_dihedral_angle_1_deg 2.937 r_mcangle_it 1.631 r_angle_refined_deg 1.345 r_mcbond_it 0.956 r_angle_other_deg 0.86 r_mcbond_other 0.312 r_chiral_restr 0.082 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6163 Nucleic Acid Atoms Solvent Atoms 616 Heterogen Atoms 58
Software Software Software Name Purpose Blu-Ice data collection BALBES phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling