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Crystal structure of human androgenic 17beta-hydroxysteroid dehydrogenase type 5 in complexed with a potent inhibitor EM1404
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XF0 PDB ENTRY 1XF0
Crystallization Crystal Properties Matthews coefficient Solvent content 2.26 45.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.347 α = 90 b = 62.781 β = 90 c = 95.974 γ = 90
Symmetry Space Group P 21 21 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 4 2001-04-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X8C 0.9795 NSLS X8C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.3 29.84 95.6 82878 75293
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 1XF0 1.3 29.84 82878 75293 3947 95.61 0.18174 0.18174 0.18089 0.1788 0.19731 0.1961 RANDOM 12.757
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.972 r_dihedral_angle_4_deg 16.888 r_dihedral_angle_3_deg 12.638 r_dihedral_angle_1_deg 5.3 r_scangle_it 1.748 r_angle_refined_deg 1.332 r_scbond_it 1.239 r_mcangle_it 0.953 r_mcbond_it 0.58 r_nbtor_refined 0.318
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.972 r_dihedral_angle_4_deg 16.888 r_dihedral_angle_3_deg 12.638 r_dihedral_angle_1_deg 5.3 r_scangle_it 1.748 r_angle_refined_deg 1.332 r_scbond_it 1.239 r_mcangle_it 0.953 r_mcbond_it 0.58 r_nbtor_refined 0.318 r_nbd_refined 0.22 r_symmetry_vdw_refined 0.131 r_xyhbond_nbd_refined 0.115 r_chiral_restr 0.092 r_symmetry_hbond_refined 0.078 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2719 Nucleic Acid Atoms Solvent Atoms 313 Heterogen Atoms 81
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement CCP4 data scaling