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Crystal structure of aldo-keto reductase (AKR2E5) of the silkworm, Bombyx mori
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.15 4M ammonium acetate
Crystal Properties Matthews coefficient Solvent content 3.37 63.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 112.18 α = 90 b = 112.18 β = 90 c = 147.628 γ = 120
Symmetry Space Group P 61 2 2
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 RAYONIX MX300HE 2015-05-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9 SPring-8 BL44XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 37 99.8 35.6 12.1 28491
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.2 37 27069 1401 99.81 0.15905 0.15675 0.1687 0.20368 0.2071 RANDOM 35.208
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] -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.572 r_dihedral_angle_4_deg 17.43 r_dihedral_angle_3_deg 13.623 r_long_range_B_refined 8.08 r_long_range_B_other 7.955 r_dihedral_angle_1_deg 6.577 r_scangle_other 6.113 r_mcangle_other 4.671 r_mcangle_it 4.669 r_scbond_it 4.078
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.572 r_dihedral_angle_4_deg 17.43 r_dihedral_angle_3_deg 13.623 r_long_range_B_refined 8.08 r_long_range_B_other 7.955 r_dihedral_angle_1_deg 6.577 r_scangle_other 6.113 r_mcangle_other 4.671 r_mcangle_it 4.669 r_scbond_it 4.078 r_scbond_other 4.077 r_mcbond_it 3.361 r_mcbond_other 3.339 r_angle_refined_deg 1.909 r_angle_other_deg 1.07 r_chiral_restr 0.117 r_bond_refined_d 0.021 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2591 Nucleic Acid Atoms Solvent Atoms 250 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling HKL-2000 phasing