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Crystal Structure of Ketosteroid Isomerase D40N from Pseudomonas Putida (pksi) with bound Phenol
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 295 1.4 M ammonium sulphate,
7% (v/v) 2-propanol,
40 mM potasium phosphate, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.06 40.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.905 α = 90.02 b = 50.54 β = 89.98 c = 72.29 γ = 110.21
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 315 2004-11-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 0.9 APS 14-BM-C
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 1.25 50 93 0.037 2.2 119468 111105
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) 1.25 1.29 0.415 1.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 1.25 22.54 110554 11094 86.04 0.188 0.183 0.1893 0.227 0.1832 RANDOM 26.57
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] 0.45 -0.03 0.11 -0.19 0.09 -0.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.164 r_dihedral_angle_4_deg 21.672 r_dihedral_angle_3_deg 15.453 r_sphericity_free 12.446 r_sphericity_bonded 8.542 r_scangle_it 6.712 r_dihedral_angle_1_deg 6.157 r_scbond_it 4.901 r_mcangle_it 3.948 r_rigid_bond_restr 3.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.164 r_dihedral_angle_4_deg 21.672 r_dihedral_angle_3_deg 15.453 r_sphericity_free 12.446 r_sphericity_bonded 8.542 r_scangle_it 6.712 r_dihedral_angle_1_deg 6.157 r_scbond_it 4.901 r_mcangle_it 3.948 r_rigid_bond_restr 3.21 r_mcbond_it 2.859 r_angle_refined_deg 2.024 r_nbtor_refined 0.32 r_symmetry_vdw_refined 0.272 r_nbd_refined 0.228 r_xyhbond_nbd_refined 0.19 r_symmetry_hbond_refined 0.179 r_chiral_restr 0.139 r_bond_refined_d 0.021 r_gen_planes_refined 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4016 Nucleic Acid Atoms Solvent Atoms 322 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction ADSC data collection DENZO data reduction SCALEPACK data scaling MOLREP phasing