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Crystal structure of the mutant of ClpP E137A from Staphylococcus aureus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3STA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 100mM BIS-TRIS, 2.0M ammonium sulfate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.54 51.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 168.729 α = 90 b = 96.059 β = 91.17 c = 192.431 γ = 90
Symmetry Space Group C 1 2 1
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 315 2011-01-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.9792 SSRF BL17U
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.6 50 95.4 92694 88480 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.69 98.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 3STA 2.7 30 4 80338 76466 4061 95.18 0.23798 0.23523 0.2312 0.29013 0.2852 RANDOM 60.411
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] -1.01 -0.54 -1.76 2.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.419 r_dihedral_angle_4_deg 22.325 r_dihedral_angle_3_deg 20.193 r_dihedral_angle_1_deg 5.857 r_scangle_it 1.941 r_angle_refined_deg 1.248 r_scbond_it 1.128 r_mcangle_it 0.825 r_mcbond_it 0.47 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.419 r_dihedral_angle_4_deg 22.325 r_dihedral_angle_3_deg 20.193 r_dihedral_angle_1_deg 5.857 r_scangle_it 1.941 r_angle_refined_deg 1.248 r_scbond_it 1.128 r_mcangle_it 0.825 r_mcbond_it 0.47 r_nbtor_refined 0.304 r_nbd_refined 0.212 r_symmetry_hbond_refined 0.197 r_xyhbond_nbd_refined 0.148 r_symmetry_vdw_refined 0.142 r_chiral_restr 0.08 r_bond_refined_d 0.01 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 19920 Nucleic Acid Atoms Solvent Atoms 23 Heterogen Atoms
Software Software Software Name Purpose ADSC data collection PHASES phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling