☰ Navigation Tabs
Crystal structure of AKR1C1 L308V mutant in complex with NADP and 3,5-dichlorosalicylic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3C3U PDB ENTRY 3C3U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 295 0.1M MES, 25% Polyethylene glycol monomethyl ether 550, 0.01M Zinc sulphate heptahydrate, pH6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.2 43.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.412 α = 90 b = 83.885 β = 90.98 c = 48.914 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 2008-11-08 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 1.9 30 94.6 0.048 11.7 4.01 24030 22733 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) 1.9 1.97 94.1 0.36 2.7 4.81 2237
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 3C3U 1.9 29.03 1 1 24030 22522 1216 94.62 0.19392 0.19041 0.1989 0.26021 0.2584 RANDOM 27.165
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] -1.46 -1.11 2.31 -0.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.935 r_dihedral_angle_4_deg 18.002 r_dihedral_angle_3_deg 14.168 r_dihedral_angle_1_deg 11.133 r_scangle_it 3.561 r_scbond_it 2.587 r_angle_refined_deg 2.023 r_mcangle_it 1.472 r_mcbond_it 1.057 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.935 r_dihedral_angle_4_deg 18.002 r_dihedral_angle_3_deg 14.168 r_dihedral_angle_1_deg 11.133 r_scangle_it 3.561 r_scbond_it 2.587 r_angle_refined_deg 2.023 r_mcangle_it 1.472 r_mcbond_it 1.057 r_nbtor_refined 0.304 r_xyhbond_nbd_refined 0.269 r_symmetry_vdw_refined 0.224 r_nbd_refined 0.2 r_symmetry_hbond_refined 0.19 r_chiral_restr 0.161 r_metal_ion_refined 0.141 r_bond_refined_d 0.022 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2559 Nucleic Acid Atoms Solvent Atoms 318 Heterogen Atoms 61
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling