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RmlC P aeruginosa with dTDP-xylose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2IXJ PDB ENTRY 2IXJ
Crystallization Crystal Properties Matthews coefficient Solvent content 2.23 44.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.785 α = 90 b = 148.065 β = 90 c = 45.434 γ = 90
Symmetry Space Group P 21 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 CCD ADSC CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX9.6 SRS PX9.6
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 1.8 44 80 0.1 5.2 3 35190
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 1.8 1.9 67 0.35 2 3
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 2IXJ 1.8 74.54 31529 1664 80.2 0.188 0.186 0.1966 0.237 0.2421 RANDOM 18.41
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] 3.51 -2.51 -1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.923 r_dihedral_angle_4_deg 17.944 r_dihedral_angle_3_deg 13.455 r_dihedral_angle_1_deg 6.637 r_scangle_it 1.85 r_angle_refined_deg 1.609 r_scbond_it 1.243 r_angle_other_deg 0.759 r_mcangle_it 0.71 r_mcbond_it 0.657
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.923 r_dihedral_angle_4_deg 17.944 r_dihedral_angle_3_deg 13.455 r_dihedral_angle_1_deg 6.637 r_scangle_it 1.85 r_angle_refined_deg 1.609 r_scbond_it 1.243 r_angle_other_deg 0.759 r_mcangle_it 0.71 r_mcbond_it 0.657 r_symmetry_vdw_other 0.278 r_nbd_refined 0.196 r_symmetry_vdw_refined 0.195 r_nbd_other 0.182 r_nbtor_refined 0.177 r_symmetry_hbond_refined 0.165 r_xyhbond_nbd_refined 0.133 r_chiral_restr 0.084 r_nbtor_other 0.077 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other 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_other r_long_range_B_refined 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 2982 Nucleic Acid Atoms Solvent Atoms 455 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling