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Crystal Structure of the Streptococcus pneumoniae Phosphomevalonate Kinase (PMK)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 sodium dihydrogen phosphate, potassium dihydrogen phosphate, HEPES, ATP, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.14 60.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 231.606 α = 90 b = 231.606 β = 90 c = 88.587 γ = 120
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 BRANDEIS - B4 27-pole hybrid wiggler and vertical focusing mirror 2001-02-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 0.9792 NSLS X25
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.4 20 98.3 0.082 0.082 24.1 6.8 202265 198856 1 1 46
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.4 2.49 92.3 0.409 0.409 2.5 18706
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 Single anomalous scattering THROUGHOUT 2.42 20 192349 192349 18573 95 0.217 0.217 0.215 0.2179 0.257 0.2596 random
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] 1.528 -5.718 1.528 -3.055
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 4.025 c_scbond_it 3.162 c_mcangle_it 2.272 c_mcbond_it 1.348 c_angle_deg 1.319 c_bond_d 0.0066
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 15000 Nucleic Acid Atoms Solvent Atoms 779 Heterogen Atoms
Software Software Software Name Purpose SnB phasing MLPHARE phasing DM model building CNS refinement DENZO data reduction SCALEPACK data scaling DM phasing