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Crystal Structure Of Human 17-Beta-Hydroxysteroid Dehydrogenase Type 4 In Complex With NAD
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GZ6 pdb entry 1GZ6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 0.2M Lithium Sulphate monohydrate, 0.1M TRIS hydrochloride pH8.5, 30% w/v polyethylene glycol 4000, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.1 40.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.826 α = 87.52 b = 50.771 β = 87.07 c = 183.775 γ = 70.75
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 MARRESEARCH 2005-03-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.91840 SLS X10SA
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 2.19 50.574 76.2 64535 64535
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.19 2.247 29.71
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 (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 1GZ6 2.19 50.57 64535 64535 3383 76.23 0.1905 0.18812 0.1862 0.23568 0.2343 RANDOM 38.37
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] 2.79 -0.03 4.08 1.35 -1.71 -4.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.118 r_dihedral_angle_3_deg 15.561 r_dihedral_angle_4_deg 15.354 r_dihedral_angle_1_deg 6.006 r_scangle_it 2.189 r_scbond_it 1.409 r_angle_refined_deg 1.347 r_mcangle_it 0.746 r_mcbond_it 0.451 r_nbtor_refined 0.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.118 r_dihedral_angle_3_deg 15.561 r_dihedral_angle_4_deg 15.354 r_dihedral_angle_1_deg 6.006 r_scangle_it 2.189 r_scbond_it 1.409 r_angle_refined_deg 1.347 r_mcangle_it 0.746 r_mcbond_it 0.451 r_nbtor_refined 0.298 r_symmetry_vdw_refined 0.201 r_nbd_refined 0.199 r_symmetry_hbond_refined 0.181 r_xyhbond_nbd_refined 0.133 r_chiral_restr 0.093 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13513 Nucleic Acid Atoms Solvent Atoms 343 Heterogen Atoms 264
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing