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Bacteroidetes AC2a SusD-like
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5J5U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 277 1.5 M ammonium sulphate, 50 mM Tris-HCl pH 7.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.703 α = 90 b = 140.269 β = 90 c = 186.63 γ = 90
Symmetry Space Group P 21 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 CCD RAYONIX MX-300 2015-11-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.979 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 2.02 56.93 99.71 0.085 0.093 0.997 11.13 6.2 172008 35.74
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 2.02 2.094 99.99 0.521 0.914 2.27 6.2
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 5J5U 2.02 56.93 163616 8392 98.69 0.1528 0.1516 0.1629 0.1761 0.1867 RANDOM 43.579
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] 0.98 -0.45 -0.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.058 r_sphericity_free 31.514 r_sphericity_bonded 16.714 r_dihedral_angle_4_deg 16.359 r_dihedral_angle_3_deg 12.013 r_dihedral_angle_1_deg 5.851 r_angle_refined_deg 0.921 r_angle_other_deg 0.834 r_rigid_bond_restr 0.704 r_chiral_restr 0.047
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.058 r_sphericity_free 31.514 r_sphericity_bonded 16.714 r_dihedral_angle_4_deg 16.359 r_dihedral_angle_3_deg 12.013 r_dihedral_angle_1_deg 5.851 r_angle_refined_deg 0.921 r_angle_other_deg 0.834 r_rigid_bond_restr 0.704 r_chiral_restr 0.047 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8220 Nucleic Acid Atoms Solvent Atoms 984 Heterogen Atoms 184
Software Software Software Name Purpose REFMAC refinement xia2 data scaling PHASER phasing PDB_EXTRACT data extraction xia2 data reduction