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Crystal structure of AKR1C1 in complex with NADP and 3,5-dichlorosalicylic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MRQ PDB ENTRY 1MRQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 295 0.1M MES, 25% Polyglycol monomethylether 550, 0.01M Zinc sulphate, pH6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.21 44.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.364 α = 90 b = 84.236 β = 91.26 c = 49.183 γ = 90
Symmetry Space Group P 1 21 1
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 MAR scanner 345 mm plate Mirrors 2007-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.54179
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 1.8 30 96.3 0.0504 11.5 2.99 27340 26329 1 2
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) 1.8 1.86 87.6 0.2299 2.5 2.7 2076
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) 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 1MRQ 1.8 30 1 1 27340 26329 1316 96.22 0.17672 0.17446 0.1784 0.21761 0.2185 RANDOM 23.654
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] -0.53 -0.59 0.92 -0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.992 r_dihedral_angle_4_deg 14.979 r_dihedral_angle_3_deg 12.028 r_dihedral_angle_1_deg 11.616 r_scangle_it 3.361 r_scbond_it 2.325 r_angle_refined_deg 1.564 r_mcangle_it 1.378 r_mcbond_it 0.973 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.992 r_dihedral_angle_4_deg 14.979 r_dihedral_angle_3_deg 12.028 r_dihedral_angle_1_deg 11.616 r_scangle_it 3.361 r_scbond_it 2.325 r_angle_refined_deg 1.564 r_mcangle_it 1.378 r_mcbond_it 0.973 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.224 r_nbd_refined 0.199 r_xyhbond_nbd_refined 0.177 r_symmetry_hbond_refined 0.14 r_chiral_restr 0.113 r_metal_ion_refined 0.056 r_bond_refined_d 0.017 r_symmetry_metal_ion_refined 0.008 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2592 Nucleic Acid Atoms Solvent Atoms 328 Heterogen Atoms 61
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing