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Crystal Structure Of Aldose Reductase (AKR1B1) Complexed With NADP+ And AT-003 Soaked In Hydrogen Peroxide
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 2.24 45.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.061 α = 77.105 b = 46.989 β = 66.937 c = 48.237 γ = 77.235
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 0.96584 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 1.6 36.475 90.5 0.035 0.05 0.035 0.999 17.4 3.8 37282
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 1.6 1.63 0.216 0.306 0.216 0.962 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 1.6 36.475 37281 1845 90.536 0.168 0.1666 0.1657 0.1948 0.1954 0.05 18.543
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] -1.248 0.524 0.916 -0.164 -1.527 1.561
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.279 r_dihedral_angle_3_deg 13.491 r_dihedral_angle_2_deg 6.393 r_dihedral_angle_1_deg 6.007 r_lrange_it 5.44 r_lrange_other 5.439 r_scangle_it 4.604 r_scangle_other 4.604 r_scbond_it 3.07 r_scbond_other 3.069
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.279 r_dihedral_angle_3_deg 13.491 r_dihedral_angle_2_deg 6.393 r_dihedral_angle_1_deg 6.007 r_lrange_it 5.44 r_lrange_other 5.439 r_scangle_it 4.604 r_scangle_other 4.604 r_scbond_it 3.07 r_scbond_other 3.069 r_mcangle_it 2.649 r_mcangle_other 2.648 r_mcbond_it 1.849 r_mcbond_other 1.84 r_angle_refined_deg 1.714 r_dihedral_angle_other_2_deg 0.661 r_angle_other_deg 0.565 r_nbd_refined 0.215 r_symmetry_nbd_refined 0.195 r_symmetry_nbd_other 0.187 r_nbtor_refined 0.185 r_nbd_other 0.182 r_xyhbond_nbd_refined 0.128 r_symmetry_xyhbond_nbd_refined 0.101 r_chiral_restr 0.091 r_symmetry_nbtor_other 0.079 r_gen_planes_refined 0.011 r_bond_refined_d 0.01 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 128 Heterogen Atoms 116
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing