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Crystal Structure of Ketosteroid Isomerase D99N from Pseudomonas Testosteroni (tKSI) with Equilenin Bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8CHO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 sitting drop 7.2 298 1.4 M ammonium sulfate, 40 mM potassium phosphate, 1 mM EDTA, 2 mM DTT, pH 7.2, sitting drop, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.82 56.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.312 α = 90 b = 64.312 β = 90 c = 506.174 γ = 120
Symmetry Space Group P 61 2 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 PIXEL DECTRIS PILATUS 6M 2010-01-16 SINGLE WAVELENGTH 2 1 x-ray 100 CCD MARMOSAIC 325 mm CCD 2010-01-06 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 0.98 SSRL BL9-1 2 SYNCHROTRON SSRL BEAMLINE BL9-2 0.98 SSRL BL9-2
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 1,2 2.1 33.63 99.2 0.094 20.6 11.7 38027 38027 24.5
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) 2.1 2.21 94.8 0.416 4.9 8.1 5131
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 8CHO 2.1 84.36 38027 37837 1895 99.15 0.169 0.169 0.166 0.1678 0.222 0.2256 RANDOM 26.739
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] 1.02 0.51 1.02 -1.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.228 r_dihedral_angle_4_deg 20.81 r_dihedral_angle_3_deg 15.56 r_dihedral_angle_1_deg 6.551 r_scangle_it 4.845 r_scbond_it 3.223 r_mcangle_it 2.018 r_angle_refined_deg 1.989 r_mcbond_it 1.17 r_chiral_restr 0.146
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.228 r_dihedral_angle_4_deg 20.81 r_dihedral_angle_3_deg 15.56 r_dihedral_angle_1_deg 6.551 r_scangle_it 4.845 r_scbond_it 3.223 r_mcangle_it 2.018 r_angle_refined_deg 1.989 r_mcbond_it 1.17 r_chiral_restr 0.146 r_bond_refined_d 0.023 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3756 Nucleic Acid Atoms Solvent Atoms 466 Heterogen Atoms 137
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction Web-Ice data collection Blu-Ice data collection XDS data reduction SCALA data scaling MOLREP phasing