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Crystal structure of a tripeptidase (SAV1512) from staphylococcus aureus subsp. aureus mu50 at 2.10 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.43 293 20.0% 2-propanol, 20.0% polyethylene glycol 4000, 0.1M sodium citrate - citric acid pH 5.43, Additive: 0.006 M zinc chloride, 0.006 M calcium chloride, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.3 46.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.996 α = 89.67 b = 57.805 β = 73.38 c = 79.857 γ = 72.36
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 MARMOSAIC 325 mm CCD double crystal monochromator 2010-03-12 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91162,0.97936,0.97911 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.1 29.517 88.6 0.139 4.89 1.99 43307 -3 24.476
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.09 2.16 73.4 0.657 1.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 2.1 29.517 43307 2176 96.42 0.169 0.1668 0.1701 0.2123 0.2128 RANDOM 25.5159
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] -0.18 -0.1 0.14 0.12 -0.29 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.985 r_dihedral_angle_4_deg 18.777 r_dihedral_angle_3_deg 13.291 r_dihedral_angle_1_deg 6.876 r_scangle_it 5.322 r_scbond_it 3.508 r_mcangle_it 2.315 r_mcbond_it 1.427 r_angle_refined_deg 1.398 r_angle_other_deg 1.242
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.985 r_dihedral_angle_4_deg 18.777 r_dihedral_angle_3_deg 13.291 r_dihedral_angle_1_deg 6.876 r_scangle_it 5.322 r_scbond_it 3.508 r_mcangle_it 2.315 r_mcbond_it 1.427 r_angle_refined_deg 1.398 r_angle_other_deg 1.242 r_mcbond_other 0.485 r_chiral_restr 0.081 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.005 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5529 Nucleic Acid Atoms Solvent Atoms 397 Heterogen Atoms 111
Software Software Software Name Purpose MolProbity model building PDB_EXTRACT data extraction SHELX phasing SHARP phasing XSCALE data scaling REFMAC refinement XDS data reduction SHELXD phasing