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Crystal Structure of Staphylococcus aureus SdrE apo form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1R17
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.1M Citric acid, pH 3.5, 16% PEG 3350 (w/v), 2% MPD (v/v)
Crystal Properties Matthews coefficient Solvent content 2.38 48.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.81 α = 80.89 b = 61.73 β = 89.83 c = 139.61 γ = 73.34
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 QUANTUM 315r 2015-06-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.9791 SSRF BL17U
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.3 40.01 95.5 0.08 7.8 2.2 55992
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.42 95.2 0.26 3.4 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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1R17 2.3 38.93 53169 2821 95.5 0.19693 0.19409 0.25171 0.2536 RANDOM 22.278
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] 0.75 0.05 0.4 -0.08 -0.88 -0.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.976 r_dihedral_angle_3_deg 16.292 r_dihedral_angle_4_deg 13.975 r_dihedral_angle_1_deg 6.275 r_long_range_B_refined 5.209 r_long_range_B_other 5.133 r_angle_other_deg 3.703 r_scangle_other 3.632 r_mcangle_it 2.678 r_mcangle_other 2.678
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.976 r_dihedral_angle_3_deg 16.292 r_dihedral_angle_4_deg 13.975 r_dihedral_angle_1_deg 6.275 r_long_range_B_refined 5.209 r_long_range_B_other 5.133 r_angle_other_deg 3.703 r_scangle_other 3.632 r_mcangle_it 2.678 r_mcangle_other 2.678 r_scbond_it 2.367 r_scbond_other 2.367 r_mcbond_it 1.713 r_mcbond_other 1.712 r_angle_refined_deg 1.409 r_chiral_restr 0.084 r_bond_refined_d 0.014 r_gen_planes_other 0.009 r_gen_planes_refined 0.005 r_bond_other_d 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 9900 Nucleic Acid Atoms Solvent Atoms 647 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing