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The lactose-specific IIB component domain structure of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) from Streptococcus pneumoniae.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 0.2M Ammonium Acetate, 0.1M HEPES pH 7.5, 25% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.76 30.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.372 α = 90 b = 41.372 β = 90 c = 98.527 γ = 90
Symmetry Space Group P 43 21 2
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 210r 2009-12-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.97934 APS 19-BM
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 1.3 50 97.3 0.072 11.4 13.3 21377 21377 -3 10.6
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) 1.3 1.32 81.3 0.37 6.3 856
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 SAD THROUGHOUT 1.3 25.15 21193 21193 1096 96.95 0.134 0.134 0.132 0.1251 0.167 0.1545 RANDOM 13.685
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] -0.33 -0.33 0.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.284 r_dihedral_angle_4_deg 20.659 r_dihedral_angle_3_deg 12.16 r_dihedral_angle_1_deg 5.18 r_scangle_it 4.944 r_scbond_it 3.408 r_mcangle_it 2.338 r_mcbond_it 1.505 r_angle_refined_deg 1.443 r_rigid_bond_restr 1.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.284 r_dihedral_angle_4_deg 20.659 r_dihedral_angle_3_deg 12.16 r_dihedral_angle_1_deg 5.18 r_scangle_it 4.944 r_scbond_it 3.408 r_mcangle_it 2.338 r_mcbond_it 1.505 r_angle_refined_deg 1.443 r_rigid_bond_restr 1.307 r_angle_other_deg 0.99 r_mcbond_other 0.475 r_chiral_restr 0.1 r_bond_refined_d 0.015 r_bond_other_d 0.009 r_gen_planes_refined 0.007 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 789 Nucleic Acid Atoms Solvent Atoms 150 Heterogen Atoms 6
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MLPHARE phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing SHELXD phasing SHELXE model building SOLVE phasing RESOLVE phasing ARP/wARP model building CCP4 phasing O model building Coot model building