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Crystal structure of human 20alpha-HSD in ternary complex with NADP and 20alpha-hydroxy-progesterone
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1J96 PDB ENTRY 1J96
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 PEG 4000, HEPES, ammonium sulfate, calcium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.26 45.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.65 α = 90 b = 83.54 β = 90 c = 100.68 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 IMAGE PLATE RIGAKU RAXIS mirrors 2002-02-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
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 1.59 20 95.6 0.056 23.8 6.7 43980 1
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 1.59 1.62 60.6 0.172 6.1 2.4 1482
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 1J96 1.59 20 1 44183 41981 2202 96.45 0.17291 0.1883 0.19444 0.205 RANDOM 7.686
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 10.315 r_dihedral_angle_1_deg 4.319 r_scangle_it 2.596 r_scbond_it 1.571 r_angle_refined_deg 1.25 r_mcangle_it 0.871 r_mcbond_it 0.459 r_nbd_refined 0.198 r_symmetry_vdw_refined 0.189 r_xyhbond_nbd_refined 0.108
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 10.315 r_dihedral_angle_1_deg 4.319 r_scangle_it 2.596 r_scbond_it 1.571 r_angle_refined_deg 1.25 r_mcangle_it 0.871 r_mcbond_it 0.459 r_nbd_refined 0.198 r_symmetry_vdw_refined 0.189 r_xyhbond_nbd_refined 0.108 r_symmetry_hbond_refined 0.096 r_chiral_restr 0.092 r_bond_refined_d 0.006 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2593 Nucleic Acid Atoms Solvent Atoms 321 Heterogen Atoms 75
Software Software Software Name Purpose XDS data reduction AMoRE phasing REFMAC refinement XDS data scaling