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Crystal structure of serine/threonine phosphatase Sphaerobacter thermophilus DSM 20745
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9.5 297 30% pag 400, 0.1 Ches, pH 9.5, VAPOR DIFFUSION, SITTING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 2.01 38.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.168 α = 90 b = 54.713 β = 99.51 c = 63.262 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 315r mirrors 2010-10-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9794 APS 19-ID
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 1.55 40 98.3 0.08 26 4.2 59002 58016 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.55 1.58 97.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) 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 1.55 40 2 2 57893 54961 2932 98.13 0.183 0.17987 0.17771 0.1853 0.21688 0.2263 RANDOM 23.95
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] -0.09 -1 0.89 -1.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.018 r_dihedral_angle_4_deg 20.066 r_dihedral_angle_3_deg 13.729 r_scangle_it 7.162 r_dihedral_angle_1_deg 6.456 r_mcbond_other 4.847 r_scbond_it 4.656 r_mcangle_it 3.306 r_rigid_bond_restr 2.382 r_mcbond_it 2.093
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.018 r_dihedral_angle_4_deg 20.066 r_dihedral_angle_3_deg 13.729 r_scangle_it 7.162 r_dihedral_angle_1_deg 6.456 r_mcbond_other 4.847 r_scbond_it 4.656 r_mcangle_it 3.306 r_rigid_bond_restr 2.382 r_mcbond_it 2.093 r_angle_refined_deg 1.769 r_angle_other_deg 1.595 r_chiral_restr 0.11 r_bond_refined_d 0.022 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3446 Nucleic Acid Atoms Solvent Atoms 333 Heterogen Atoms 10
Software Software Software Name Purpose SBC-Collect data collection HKL-3000 phasing SHELX model building ARP/wARP model building CCP4 model building REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling SHELX phasing CCP4 phasing