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The crystal structure of 3-ketosteroid-delta4-(5alpha)-dehydrogenase from Rhodococcus jostii RHA1 in complex with 4-androstene-3,17- dione
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 CRYSTALS WERE OBTAINED FROM 200 MM AMMONIUM ACETATE, 100 MM SODIUM CITRATE PH 5.6 AND 30%(W/V) PEG 4000
Crystal Properties Matthews coefficient Solvent content 3.12 60.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.778 α = 90 b = 116.082 β = 90 c = 110.151 γ = 90
Symmetry Space Group C 2 2 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 210 2007-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 1.6 51.35 95.2 0.11 10.5 4.88 80072 13.2
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 1.6 1.69 74.1 0.37 3.2 4.28
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 OTHER THROUGHOUT NONE 1.6 51.367 80066 4018 95.02 0.16 0.1593 0.1609 0.1806 0.1832 RANDOM 12.916
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] 0.418 0.173 -0.591
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.782 r_dihedral_angle_4_deg 12.977 r_dihedral_angle_3_deg 11.469 r_scangle_it 5.246 r_dihedral_angle_1_deg 5.179 r_scbond_it 2.51 r_angle_refined_deg 1.251 r_mcangle_it 1.183 r_mcbond_it 0.701 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.782 r_dihedral_angle_4_deg 12.977 r_dihedral_angle_3_deg 11.469 r_scangle_it 5.246 r_dihedral_angle_1_deg 5.179 r_scbond_it 2.51 r_angle_refined_deg 1.251 r_mcangle_it 1.183 r_mcbond_it 0.701 r_nbtor_refined 0.305 r_symmetry_vdw_refined 0.236 r_nbd_refined 0.212 r_symmetry_hbond_refined 0.101 r_xyhbond_nbd_refined 0.09 r_chiral_restr 0.086 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3598 Nucleic Acid Atoms Solvent Atoms 617 Heterogen Atoms 75
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling