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Crystal structures of prostaglandin D2 11-ketoreductase (AKR1C3) in complex with the non-steroidal anti-inflammatory drugs flufenamic acid and indomethacin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 291 PEG, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.22 44.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.681 α = 90 b = 63.119 β = 90 c = 96.113 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 2001-11-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.93 ESRF ID14-1
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 1.2 52.7 98.5 0.059 16.4 5 106631 105032 9.3
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) 1.2 1.26 90.1 0.242 4.1 2.6 13800
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.2 38 99571 5232 98.51 0.14679 0.1463 0.15594 RANDOM 13.5
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] 0.15 0.17 -0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.496 r_dihedral_angle_1_deg 4.449 r_scangle_it 2.243 r_sphericity_free 1.438 r_scbond_it 1.407 r_angle_refined_deg 1.346 r_mcangle_it 1.043 r_sphericity_bonded 0.955 r_angle_other_deg 0.834 r_rigid_bond_restr 0.726
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.496 r_dihedral_angle_1_deg 4.449 r_scangle_it 2.243 r_sphericity_free 1.438 r_scbond_it 1.407 r_angle_refined_deg 1.346 r_mcangle_it 1.043 r_sphericity_bonded 0.955 r_angle_other_deg 0.834 r_rigid_bond_restr 0.726 r_mcbond_it 0.584 r_symmetry_vdw_refined 0.345 r_symmetry_vdw_other 0.341 r_symmetry_hbond_refined 0.245 r_nbd_refined 0.237 r_nbd_other 0.196 r_xyhbond_nbd_refined 0.159 r_chiral_restr 0.079 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2582 Nucleic Acid Atoms Solvent Atoms 440 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling CNS phasing