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The structure of AtzH: a little known member of the atrazine breakdown pathway
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6BJU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 Protein was at 4 mg/mL and added in equal volume (150 plus 150 nL) to reservoir in sitting drops at 20 C. Reservoir contained 20% PEG 3350 and 0.2 M diammonium tartrate
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.724 α = 90 b = 74.656 β = 96.69 c = 103.611 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 16M 2018-03-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.95372 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.3 50.1 100 0.267 0.109 0.986 6.6 6.9 67480
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.35 100 1.402 0.561 0.761 1.6 7.1
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 6bju 2.3 50.1 64253 3196 99.97 0.25062 0.24886 0.2555 0.28608 0.2915 RANDOM 25.252
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] -2.17 0.41 -3.37 5.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.989 r_dihedral_angle_4_deg 16.679 r_dihedral_angle_3_deg 16.245 r_long_range_B_refined 6.721 r_long_range_B_other 6.721 r_dihedral_angle_1_deg 5.332 r_mcangle_it 3.098 r_mcangle_other 3.097 r_scangle_other 2.751 r_mcbond_it 1.807
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.989 r_dihedral_angle_4_deg 16.679 r_dihedral_angle_3_deg 16.245 r_long_range_B_refined 6.721 r_long_range_B_other 6.721 r_dihedral_angle_1_deg 5.332 r_mcangle_it 3.098 r_mcangle_other 3.097 r_scangle_other 2.751 r_mcbond_it 1.807 r_mcbond_other 1.807 r_scbond_it 1.639 r_scbond_other 1.639 r_angle_refined_deg 1.363 r_angle_other_deg 0.787 r_chiral_restr 0.09 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.003 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 11625 Nucleic Acid Atoms Solvent Atoms 288 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling PHASER phasing