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Crystal Structure of the Bacterocin Transport Accessory Protein from Streptococcus pneumoniae
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 295 PEG 3350, HEPES, Sodium Chloride, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2 37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 27.006 α = 90 b = 69.658 β = 112.27 c = 29.621 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 SBC-3 mirrors 2005-04-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.97926 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 1.25 25.5 89.8 0.071 14.9 7 25134 24991
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) 1.25 1.29 51.6 0.225 6.8 4.2
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 1.25 25.5 22451 22451 2516 89.7 0.13138 0.13138 0.12748 0.1338 0.16686 0.1705 RANDOM 9.835
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] -0.42 -0.74 -0.46 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.537 r_dihedral_angle_4_deg 13.11 r_dihedral_angle_3_deg 11.846 r_sphericity_free 6.077 r_dihedral_angle_1_deg 5.06 r_scangle_it 3.277 r_sphericity_bonded 2.849 r_scbond_it 2.466 r_mcangle_it 1.556 r_angle_refined_deg 1.434
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.537 r_dihedral_angle_4_deg 13.11 r_dihedral_angle_3_deg 11.846 r_sphericity_free 6.077 r_dihedral_angle_1_deg 5.06 r_scangle_it 3.277 r_sphericity_bonded 2.849 r_scbond_it 2.466 r_mcangle_it 1.556 r_angle_refined_deg 1.434 r_mcbond_it 1.249 r_rigid_bond_restr 1.1 r_angle_other_deg 0.863 r_mcbond_other 0.512 r_symmetry_vdw_other 0.312 r_nbd_refined 0.258 r_symmetry_vdw_refined 0.252 r_xyhbond_nbd_refined 0.219 r_symmetry_hbond_refined 0.208 r_nbd_other 0.197 r_chiral_restr 0.09 r_nbtor_other 0.083 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1092 Nucleic Acid Atoms Solvent Atoms 256 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-2000 data scaling HKL-3000 phasing SHELXCD phasing SHELXD phasing SHELXE model building MLPHARE phasing SOLVE phasing RESOLVE phasing ARP/wARP model building