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Crystal structure of arsenite oxidase from Alcaligenes faecalis (Af Aio) bound to arsenite
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1G8K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 10% v/v PEG 4000, 0.1 M sodium citrate pH 5.5 and 10% v/v isopropanol
Crystal Properties Matthews coefficient Solvent content 2.67 53.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.306 α = 97.5 b = 108.982 β = 90.21 c = 116.892 γ = 96.06
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 2020-11-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.9792 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.57 65.62 74.5 0.989 5.6 3.5 452928
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.57 1.69 0.78
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 (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 1.57 65.62 22648 73.17 0.16974 0.16792 0.1781 0.20439 0.2128 RANDOM 13.787
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] 0.1 0.07 0.01 -0.02 0.13 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.267 r_dihedral_angle_4_deg 20.422 r_dihedral_angle_3_deg 13.678 r_dihedral_angle_1_deg 7.641 r_long_range_B_refined 2.884 r_long_range_B_other 2.792 r_angle_refined_deg 1.886 r_angle_other_deg 1.506 r_scangle_other 1.329 r_scbond_it 0.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.267 r_dihedral_angle_4_deg 20.422 r_dihedral_angle_3_deg 13.678 r_dihedral_angle_1_deg 7.641 r_long_range_B_refined 2.884 r_long_range_B_other 2.792 r_angle_refined_deg 1.886 r_angle_other_deg 1.506 r_scangle_other 1.329 r_scbond_it 0.86 r_scbond_other 0.86 r_mcangle_it 0.786 r_mcangle_other 0.786 r_mcbond_it 0.509 r_mcbond_other 0.509 r_chiral_restr 0.095 r_bond_refined_d 0.014 r_gen_planes_refined 0.012 r_bond_other_d 0.002 r_gen_planes_other 0.001 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 29875 Nucleic Acid Atoms Solvent Atoms 3683 Heterogen Atoms 644
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction Aimless data scaling PHASER phasing