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Complex Structure of Staphylococcus aureus SdrE with human complement factor H
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 298 0.1M HEPES sodium pH 7.5, 0.2M Magnesium chloride, 30% PEG 400 (v/v)
Crystal Properties Matthews coefficient Solvent content 3.46 64.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.5 α = 90 b = 117.5 β = 90 c = 154.39 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 PIXEL DECTRIS PILATUS3 6M 2016-03-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.9779 SSRF BL18U1
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 3.3 49.79 96.1 0.1 7 2.8 31291
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 3.3 3.48 97.9 0.56 1.9 2.8
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 1R17 3.3 49.79 29695 1580 95.22 0.22483 0.22189 0.2232 0.28097 0.2808 RANDOM 89.516
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] -3.02 -3.51 6.52
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.594 r_dihedral_angle_4_deg 20.235 r_dihedral_angle_3_deg 19.009 r_long_range_B_refined 11.537 r_long_range_B_other 11.536 r_mcangle_it 8.794 r_mcangle_other 8.793 r_scangle_other 8.607 r_dihedral_angle_1_deg 6.541 r_mcbond_it 5.736
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.594 r_dihedral_angle_4_deg 20.235 r_dihedral_angle_3_deg 19.009 r_long_range_B_refined 11.537 r_long_range_B_other 11.536 r_mcangle_it 8.794 r_mcangle_other 8.793 r_scangle_other 8.607 r_dihedral_angle_1_deg 6.541 r_mcbond_it 5.736 r_mcbond_other 5.734 r_scbond_it 5.515 r_scbond_other 5.515 r_angle_other_deg 3.726 r_angle_refined_deg 1.371 r_chiral_restr 0.078 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_gen_planes_other 0.004 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 10427 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing