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Bordetella Alcaligenes HDAH native
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5G0X PDB ENTRY 5G0X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.25 pH 5.25
Crystal Properties Matthews coefficient Solvent content 2.9 57.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.66 α = 90 b = 100.66 β = 90 c = 175.11 γ = 90
Symmetry Space Group P 42 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 PILATUS 6M 2015-12-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 1.7 27.6 100 0.13 8.4 8 99299 2.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.73 100 0.85 2.3 8.2
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 PDB ENTRY 5G0X 1.7 87.56 94197 4899 99.8 0.15371 0.15174 0.1653 0.19147 0.2012 RANDOM 18.786
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] 0.65 0.65 -1.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.252 r_dihedral_angle_4_deg 18.432 r_dihedral_angle_3_deg 11.768 r_dihedral_angle_1_deg 6.234 r_rigid_bond_restr 2.925 r_scbond_it 2.586 r_mcangle_it 2.486 r_mcbond_it 1.964 r_mcbond_other 1.961 r_angle_refined_deg 1.508
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.252 r_dihedral_angle_4_deg 18.432 r_dihedral_angle_3_deg 11.768 r_dihedral_angle_1_deg 6.234 r_rigid_bond_restr 2.925 r_scbond_it 2.586 r_mcangle_it 2.486 r_mcbond_it 1.964 r_mcbond_other 1.961 r_angle_refined_deg 1.508 r_angle_other_deg 1.106 r_chiral_restr 0.084 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.004 r_gen_planes_other 0.003 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5568 Nucleic Acid Atoms Solvent Atoms 915 Heterogen Atoms 80
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling MOLREP phasing