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Crystal Structure Of Aldose Reductase (AKR1B1) Complexed With NADP+ And AT-001
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 3350, 100 mM Bis-Tris
Crystal Properties Matthews coefficient Solvent content 2.21 44.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.144 α = 75.871 b = 47.026 β = 67.434 c = 47.34 γ = 76.779
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 2019-04-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.97946 SSRL BL12-2
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 1.62 36.674 88.6 0.042 0.059 0.042 0.998 16.7 3.8 34509
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 1.62 1.65 0.145 0.205 0.145 0.976 3.9
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 1.62 36.674 34507 1775 88.559 0.144 0.143 0.1425 0.1672 0.1671 0.05 14.03
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] 0.138 0.241 0.458 -0.139 -0.339 0.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 17.029 r_dihedral_angle_3_deg 13.295 r_dihedral_angle_2_deg 6.132 r_dihedral_angle_1_deg 5.793 r_lrange_it 5.467 r_lrange_other 5.461 r_scangle_it 4.704 r_scangle_other 4.703 r_scbond_it 3.059 r_scbond_other 3.059
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 17.029 r_dihedral_angle_3_deg 13.295 r_dihedral_angle_2_deg 6.132 r_dihedral_angle_1_deg 5.793 r_lrange_it 5.467 r_lrange_other 5.461 r_scangle_it 4.704 r_scangle_other 4.703 r_scbond_it 3.059 r_scbond_other 3.059 r_mcangle_it 2.154 r_mcangle_other 2.153 r_angle_refined_deg 1.769 r_mcbond_it 1.438 r_mcbond_other 1.438 r_dihedral_angle_other_2_deg 0.785 r_angle_other_deg 0.578 r_nbd_refined 0.226 r_symmetry_nbd_other 0.188 r_nbtor_refined 0.186 r_symmetry_nbd_refined 0.185 r_symmetry_xyhbond_nbd_refined 0.165 r_nbd_other 0.147 r_xyhbond_nbd_refined 0.109 r_chiral_restr 0.093 r_symmetry_nbtor_other 0.08 r_gen_planes_refined 0.012 r_bond_refined_d 0.011 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 141 Heterogen Atoms 77
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing