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Crystal structure of SpaA-SLH/G109A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6CWC PDB entry 6CWC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 289 0.2 M ammonium acetate, 0.1 M Tris, pH 8.5, 25% w/v PEG3350
Crystal Properties Matthews coefficient Solvent content 2.08 40.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.348 α = 90 b = 65.668 β = 90 c = 73.168 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 2015-07-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.9795 CLSI 08ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.15 50 96.4 0.043 0.047 0.018 12.8 7.3 57497
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.15 1.17 93.5 0.745 0.806 0.303 0.798 6.9 2769
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 6CWC 1.15 50 51418 2631 90.69 0.1322 0.1309 0.1329 0.159 0.1597 RANDOM 20.294
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] -0.05 0.17 -0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.741 r_sphericity_free 25.412 r_dihedral_angle_4_deg 15.068 r_dihedral_angle_3_deg 13.617 r_sphericity_bonded 8.358 r_rigid_bond_restr 6.667 r_dihedral_angle_1_deg 5.346 r_angle_refined_deg 2.158 r_mcangle_it 1.92 r_mcbond_it 1.747
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.741 r_sphericity_free 25.412 r_dihedral_angle_4_deg 15.068 r_dihedral_angle_3_deg 13.617 r_sphericity_bonded 8.358 r_rigid_bond_restr 6.667 r_dihedral_angle_1_deg 5.346 r_angle_refined_deg 2.158 r_mcangle_it 1.92 r_mcbond_it 1.747 r_mcbond_other 1.718 r_angle_other_deg 0.936 r_chiral_restr 0.131 r_bond_refined_d 0.024 r_gen_planes_refined 0.015 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1311 Nucleic Acid Atoms Solvent Atoms 185 Heterogen Atoms 1
Software Software Software Name Purpose HKL-2000 data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction PHASER phasing