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Structure of Human Aldehyde oxidase under TCEP-reducing conditions
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4UHW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.7 277 12% PEG 3350, 100 mM sodium malonate pH 4.7
Crystal Properties Matthews coefficient Solvent content 3.44 64.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 191.204 α = 90 b = 273.118 β = 90 c = 77.883 γ = 90
Symmetry Space Group P 21 21 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 PIXEL DECTRIS EIGER X 4M 2025-05-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-3 0.96770 ESRF MASSIF-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 2.3 95.79 94.5 0.35 1 6.6 7.1 100292 31.35
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.6 81.4 1.4 0.5
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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.307 95.602 100289 5135 55.732 0.21 0.2086 0.2105 0.2409 0.2406 31.351
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] -0.225 0.173 0.052
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.31 r_dihedral_angle_6_deg 12.382 r_dihedral_angle_1_deg 6.528 r_dihedral_angle_2_deg 5.454 r_lrange_it 4.03 r_lrange_other 4.03 r_mcangle_it 2.338 r_mcangle_other 2.338 r_scangle_it 2.084 r_scangle_other 2.084
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.31 r_dihedral_angle_6_deg 12.382 r_dihedral_angle_1_deg 6.528 r_dihedral_angle_2_deg 5.454 r_lrange_it 4.03 r_lrange_other 4.03 r_mcangle_it 2.338 r_mcangle_other 2.338 r_scangle_it 2.084 r_scangle_other 2.084 r_mcbond_it 1.287 r_mcbond_other 1.287 r_scbond_it 1.126 r_scbond_other 1.126 r_angle_refined_deg 1.029 r_angle_other_deg 0.363 r_nbd_refined 0.198 r_symmetry_nbd_other 0.194 r_dihedral_angle_other_2_deg 0.19 r_nbd_other 0.189 r_nbtor_refined 0.173 r_symmetry_xyhbond_nbd_refined 0.166 r_metal_ion_refined 0.151 r_xyhbond_nbd_refined 0.13 r_symmetry_nbd_refined 0.124 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.049 r_chiral_restr_other 0.01 r_bond_refined_d 0.003 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 20052 Nucleic Acid Atoms Solvent Atoms 29 Heterogen Atoms 212
Software Software Software Name Purpose REFMAC refinement PHASER phasing autoPROC data processing STARANISO data scaling XDS data reduction Aimless data scaling XSCALE data scaling pointless data scaling