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Crystal Structure Of Aldose Reductase (AKR1B1) Complexed With NADP+ And AT-007
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 298 25%
PEG 3,350, 100 mM Bis-Tris
Crystal Properties Matthews coefficient Solvent content 2.19 43.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.179 α = 75.478 b = 46.888 β = 67.366 c = 47.296 γ = 76.634
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2019-02-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.97946 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.7 36.688 90.7 0.035 0.05 0.035 0.999 14.4 3.8 30424
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.73 0.187 0.265 0.187 0.967 3.8
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.7 36.688 30421 1516 90.666 0.152 0.1501 0.1497 0.1818 0.1821 0.05 16.5
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] 0.172 -0.032 0.58 -0.761 -0.495 0.717
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 17.914 r_dihedral_angle_3_deg 14.222 r_dihedral_angle_2_deg 8.87 r_dihedral_angle_1_deg 6.046 r_lrange_it 6.04 r_lrange_other 6.019 r_scangle_it 5.154 r_scangle_other 5.153 r_scbond_it 3.345 r_scbond_other 3.344
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 17.914 r_dihedral_angle_3_deg 14.222 r_dihedral_angle_2_deg 8.87 r_dihedral_angle_1_deg 6.046 r_lrange_it 6.04 r_lrange_other 6.019 r_scangle_it 5.154 r_scangle_other 5.153 r_scbond_it 3.345 r_scbond_other 3.344 r_mcangle_it 2.649 r_mcangle_other 2.649 r_angle_refined_deg 1.977 r_mcbond_it 1.94 r_mcbond_other 1.939 r_dihedral_angle_other_2_deg 0.976 r_angle_other_deg 0.682 r_nbd_refined 0.22 r_symmetry_nbd_refined 0.205 r_symmetry_nbd_other 0.194 r_nbtor_refined 0.186 r_nbd_other 0.185 r_symmetry_xyhbond_nbd_refined 0.175 r_xyhbond_nbd_refined 0.146 r_chiral_restr 0.115 r_symmetry_nbtor_other 0.083 r_bond_refined_d 0.015 r_gen_planes_refined 0.014 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2517 Nucleic Acid Atoms Solvent Atoms 148 Heterogen Atoms 96
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing