☰ Navigation Tabs
Aldo-keto reductase KmAKR - Y28A/K29H/T63M/Y296W/W297H
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 291 Magnesium chloride hexahydrate, TRIS hydrochloride, Polyethylene glycol 4000
Crystal Properties Matthews coefficient Solvent content 2.33 47.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.615 α = 90 b = 116.688 β = 101.37 c = 83.839 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 PIXEL DECTRIS EIGER X 9M 2022-09-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL02U1 0.97918 SSRF BL02U1
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 1.94 67.27 98 0.104 0.119 0.057 0.996 6.2 4.3 93041
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 1.94 2.05 97.1 0.727 0.833 0.401 0.754 4.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 AlphaFold 1.94 58.41 88407 4595 97.85 0.20599 0.20396 0.2107 0.24537 0.2527 RANDOM 31.179
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] 3.49 -0.65 -1.72 -1.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.679 r_dihedral_angle_2_deg 12.501 r_long_range_B_refined 7.128 r_long_range_B_other 7.128 r_dihedral_angle_1_deg 6.831 r_scangle_other 5.69 r_mcangle_it 3.649 r_mcangle_other 3.649 r_scbond_it 3.518 r_scbond_other 3.518
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.679 r_dihedral_angle_2_deg 12.501 r_long_range_B_refined 7.128 r_long_range_B_other 7.128 r_dihedral_angle_1_deg 6.831 r_scangle_other 5.69 r_mcangle_it 3.649 r_mcangle_other 3.649 r_scbond_it 3.518 r_scbond_other 3.518 r_mcbond_it 2.547 r_mcbond_other 2.547 r_angle_refined_deg 0.875 r_angle_other_deg 0.3 r_chiral_restr 0.045 r_gen_planes_refined 0.008 r_bond_refined_d 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 9825 Nucleic Acid Atoms Solvent Atoms 286 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction MOLREP phasing