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Crystal Structure of Ketosteroid Isomerase P39GV40GS42G from Pseudomonas Testosteroni (tKSI) bound to Equilenin
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 VAPOR DIFFUSION, SITTING DROP 7.2 298 10mg/ml protein, 1.8 M ammonium sulfate,
40mM potassium phosphate , 1 mM EDTA, 2mM DTT, pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.84 56.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.36 α = 90 b = 64.36 β = 90 c = 505.583 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 CCD MARMOSAIC 325 mm CCD 2010-03-24 SINGLE WAVELENGTH 2 1 x-ray 100 CCD ADSC QUANTUM 315r 2010-04-07 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.9795 SSRL BL9-2 2 SYNCHROTRON SSRL BEAMLINE BL9-1 0.9795 SSRL BL9-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.825 37.45 98.7 0.07 25.8 13.1 56752 56752
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 1.83 1.87 87.2 0.383 0.383 2 2.3 3579
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 1.83 37.45 56549 56549 2873 98.64 0.1894 0.1894 0.1874 0.1863 0.2276 0.227 RANDOM 18.6023
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 0.19 0.38 -0.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.285 r_dihedral_angle_4_deg 18.646 r_dihedral_angle_3_deg 15.621 r_dihedral_angle_1_deg 6.284 r_scangle_it 4.601 r_scbond_it 2.999 r_mcangle_it 2.098 r_angle_refined_deg 1.857 r_angle_other_deg 1.397 r_mcbond_it 1.224
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.285 r_dihedral_angle_4_deg 18.646 r_dihedral_angle_3_deg 15.621 r_dihedral_angle_1_deg 6.284 r_scangle_it 4.601 r_scbond_it 2.999 r_mcangle_it 2.098 r_angle_refined_deg 1.857 r_angle_other_deg 1.397 r_mcbond_it 1.224 r_mcbond_other 0.255 r_chiral_restr 0.121 r_bond_refined_d 0.022 r_gen_planes_refined 0.009 r_gen_planes_other 0.004 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3683 Nucleic Acid Atoms Solvent Atoms 502 Heterogen Atoms 125
Software Software Software Name Purpose SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection XDS data reduction