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Crystal structure of arsenite oxidase from Pseudorhizobium banfieldiae str. NT-26 (NT-26 Aio) bound to antimony trioxide
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 277 2 M ammonium sulphate, 0.1 M HEPES sodium salt pH 7.5 and 2% v/v PEG 400
Crystal Properties Matthews coefficient Solvent content 2.73 55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 141.533 α = 90 b = 148.395 β = 90 c = 232.68 γ = 90
Symmetry Space Group P 2 21 21
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 2M-F 2019-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 0.978 SLS X06DA
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 1.89 49.3 100 0.997 13.1 13.8 354714
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 1.89 1.98 0.511
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 1.89 141.53 368315 19519 99.79 0.15715 0.15487 0.1643 0.20039 0.2064 RANDOM 29.108
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] -0.03 -0.02 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.638 r_dihedral_angle_4_deg 18.663 r_dihedral_angle_3_deg 14.11 r_long_range_B_refined 7.277 r_long_range_B_other 7.021 r_dihedral_angle_1_deg 6.962 r_scangle_other 5.304 r_scbond_it 3.524 r_scbond_other 3.524 r_mcangle_other 2.897
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.638 r_dihedral_angle_4_deg 18.663 r_dihedral_angle_3_deg 14.11 r_long_range_B_refined 7.277 r_long_range_B_other 7.021 r_dihedral_angle_1_deg 6.962 r_scangle_other 5.304 r_scbond_it 3.524 r_scbond_other 3.524 r_mcangle_other 2.897 r_mcangle_it 2.896 r_mcbond_it 2.154 r_mcbond_other 2.153 r_angle_refined_deg 2.09 r_angle_other_deg 1.083 r_chiral_restr 0.121 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 30164 Nucleic Acid Atoms Solvent Atoms 3567 Heterogen Atoms 653
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing