☰ Navigation Tabs
Crystal structure of human 17beta-hydroxysteroid dehydrogenase type 5 (AKR1C3) complexed with delta4-androstene-3,17-dione and NADP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ASF PDB ENTRY 1ASF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 PEG 8000, magnesium acetate, sodium cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.54 51.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.579 α = 90 b = 110.579 β = 90 c = 56.886 γ = 120
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 2000-10-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X8C 0.9511 NSLS X8C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2 50 99.6 0.143 9.91 8.1 27053 26940 2 27.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2 2.07 98.6 0.488 2.46 3.6
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 1ASF 2 36.2 27053 25590 1350 99.64 0.191 0.17284 0.17013 0.1722 0.22488 0.2231 RANDOM 18.318
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 35.814 r_dihedral_angle_4_deg 18.108 r_dihedral_angle_3_deg 12.804 r_dihedral_angle_1_deg 6.284 r_scangle_it 3.645 r_scbond_it 2.464 r_angle_refined_deg 2.408 r_mcangle_it 1.571 r_mcbond_it 1.041 r_nbtor_refined 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.814 r_dihedral_angle_4_deg 18.108 r_dihedral_angle_3_deg 12.804 r_dihedral_angle_1_deg 6.284 r_scangle_it 3.645 r_scbond_it 2.464 r_angle_refined_deg 2.408 r_mcangle_it 1.571 r_mcbond_it 1.041 r_nbtor_refined 0.31 r_nbd_refined 0.203 r_symmetry_hbond_refined 0.153 r_symmetry_vdw_refined 0.15 r_xyhbond_nbd_refined 0.131 r_chiral_restr 0.112 r_bond_refined_d 0.017 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2538 Nucleic Acid Atoms Solvent Atoms 206 Heterogen Atoms 73
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing