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Structure of the arsenite-bound form of AioX from Rhizobium sp. str. NT-26
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6ESK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.6 289.15 25 % PEG 3350, 0.1 M Tris-HCl
Crystal Properties Matthews coefficient Solvent content 4.32 71.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 202.359 α = 90 b = 116.917 β = 90.02 c = 136.838 γ = 90
Symmetry Space Group C 1 2 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 PILATUS 6M 2015-12-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.917 SOLEIL PROXIMA 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 3 136.838 97.9 0.11 10 4 62521
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 3 3.07 0.587 0.651
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 6ESK 3 136.84 59325 3194 97.69 0.19344 0.19222 0.1921 0.21495 0.2147 RANDOM 61.286
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] 1.42 -0.11 1.63 -3.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.629 r_dihedral_angle_4_deg 20.215 r_dihedral_angle_3_deg 18.804 r_long_range_B_refined 13.042 r_mcangle_it 8.325 r_scbond_it 6.12 r_mcbond_it 5.451 r_dihedral_angle_1_deg 5.448 r_angle_refined_deg 1.659 r_chiral_restr 0.127
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.629 r_dihedral_angle_4_deg 20.215 r_dihedral_angle_3_deg 18.804 r_long_range_B_refined 13.042 r_mcangle_it 8.325 r_scbond_it 6.12 r_mcbond_it 5.451 r_dihedral_angle_1_deg 5.448 r_angle_refined_deg 1.659 r_chiral_restr 0.127 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12167 Nucleic Acid Atoms Solvent Atoms 2 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling PHASER phasing