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Crystal structure of a conserved domain protein (SP_1775) from Streptococcus pneumoniae TIGR4 at 1.91 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.2M magnesium nitrate, 20.0% polyethylene glycol 3350, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.2 44.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.152 α = 90 b = 98.168 β = 107.2 c = 68.93 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 ADSC QUANTUM 315 KOHZU: Double Crystal Si(111) 2012-09-20 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 0.918401,0.979338,0.979111 ALS 8.2.2
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 1.91 29.304 96.2 0.051 10.68 48771 -3 26.14
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 1.91 1.98 95.4 0.564 1.5
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 1.91 29.304 48740 2471 98.58 0.1824 0.1798 0.1878 0.2324 0.24 RANDOM 36.0527
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] 0.22 -0.35 1.4 -1.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.96 r_dihedral_angle_4_deg 19.036 r_dihedral_angle_3_deg 12.787 r_dihedral_angle_1_deg 5.353 r_mcangle_it 3.201 r_mcbond_it 2.249 r_mcbond_other 2.249 r_angle_refined_deg 1.181 r_angle_other_deg 0.671 r_chiral_restr 0.044
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.96 r_dihedral_angle_4_deg 19.036 r_dihedral_angle_3_deg 12.787 r_dihedral_angle_1_deg 5.353 r_mcangle_it 3.201 r_mcbond_it 2.249 r_mcbond_other 2.249 r_angle_refined_deg 1.181 r_angle_other_deg 0.671 r_chiral_restr 0.044 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4980 Nucleic Acid Atoms Solvent Atoms 309 Heterogen Atoms 87
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