☰ Navigation Tabs
Staphylococcus aureus ClpP in complex with compound 3421
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3STL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 4.5 291.15 0.1 M NaOAc pH 4.5, 18-35% MPD, 0.02M CaCl2
Crystal Properties Matthews coefficient Solvent content 2.72 54.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.073 α = 90 b = 126.143 β = 93.88 c = 145.475 γ = 90
Symmetry Space Group P 1 21 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 RAYONIX MX300-HS 2016-03-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
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 1.68 50 99.9 0.08 0.092 0.046 8.4 3.9 380426
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 1.68 1.71 99.9 0.494 0.577 0.297 0.771 3.7
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 3STL 1.68 49.9 361397 18992 99.65 0.1668 0.166 0.1771 0.1816 0.1922 RANDOM 24.798
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] 1.06 -0.34 -0.31 -0.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.044 r_dihedral_angle_4_deg 19.837 r_dihedral_angle_3_deg 13.677 r_dihedral_angle_1_deg 5.952 r_angle_refined_deg 1.749 r_angle_other_deg 1.53 r_chiral_restr 0.085 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_bond_other_d 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.044 r_dihedral_angle_4_deg 19.837 r_dihedral_angle_3_deg 13.677 r_dihedral_angle_1_deg 5.952 r_angle_refined_deg 1.749 r_angle_other_deg 1.53 r_chiral_restr 0.085 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 19413 Nucleic Acid Atoms Solvent Atoms 1994 Heterogen Atoms 653
Software Software Software Name Purpose REFMAC refinement HKL-2000 data scaling PHASER phasing PDB_EXTRACT data extraction HKL-2000 data reduction