☰ Navigation Tabs
Crystal structure of human 17beta-hydroxysteroid dehydrogenase type 5 in complex with (R)-1-(naphthalen-2-ylsulfonyl)piperidine-3-carboxylic acid (86)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2FGB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 289 20% PEG3350, 0.2 M sodium acetate, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.3 46.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.127 α = 90 b = 63.469 β = 90 c = 96.445 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 RIGAKU SATURN 944+ Varimax HF Optics 2010-03-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54182
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 2.2 18.68 97.6 0.096 2.9 17915 17915
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 2.2 2.28 93.5 0.342 1.9 2.4 1656
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 2FGB 2.2 18.68 51579 17000 915 97.43 0.21115 0.20772 0.2084 0.27808 0.2702 RANDOM 23.701
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] -1.08 -0.63 1.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.901 r_dihedral_angle_3_deg 15.748 r_dihedral_angle_4_deg 14.28 r_dihedral_angle_1_deg 6.793 r_scangle_it 3.724 r_scbond_it 2.571 r_angle_refined_deg 1.848 r_mcangle_it 1.578 r_angle_other_deg 1.045 r_mcbond_it 0.906
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.901 r_dihedral_angle_3_deg 15.748 r_dihedral_angle_4_deg 14.28 r_dihedral_angle_1_deg 6.793 r_scangle_it 3.724 r_scbond_it 2.571 r_angle_refined_deg 1.848 r_mcangle_it 1.578 r_angle_other_deg 1.045 r_mcbond_it 0.906 r_mcbond_other 0.261 r_chiral_restr 0.12 r_bond_refined_d 0.022 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2414 Nucleic Acid Atoms Solvent Atoms 103 Heterogen Atoms 78
Software Software Software Name Purpose StructureStudio data collection PHASER phasing REFMAC refinement