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Crystal structure of acylphosphatase from Bacillus subtilis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIQUID DIFFUSION 5.5 277 50mM phosphate buffer, pH 5.5, LIQUID DIFFUSION, temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.87 34.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 26.857 α = 90 b = 48.27 β = 90 c = 59.567 γ = 90
Symmetry Space Group P 21 21 21
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 MAR CCD 165 mm M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BSRF BEAMLINE 3W1A 1.1 BSRF 3W1A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 66430
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 MOLECULAR REPLACEMENT THROUGHOUT 1.33 29.79 18408 945 99.59 0.192 0.19 0.1786 0.225 0.2112 RANDOM 15.823
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] 0.19 -0.07 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.587 r_dihedral_angle_4_deg 13.042 r_dihedral_angle_3_deg 11.651 r_dihedral_angle_1_deg 6.139 r_scangle_it 1.684 r_angle_refined_deg 1.271 r_scbond_it 1.222 r_mcangle_it 1.043 r_mcbond_it 0.673 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.587 r_dihedral_angle_4_deg 13.042 r_dihedral_angle_3_deg 11.651 r_dihedral_angle_1_deg 6.139 r_scangle_it 1.684 r_angle_refined_deg 1.271 r_scbond_it 1.222 r_mcangle_it 1.043 r_mcbond_it 0.673 r_nbtor_refined 0.314 r_nbd_refined 0.29 r_symmetry_vdw_refined 0.151 r_symmetry_hbond_refined 0.123 r_xyhbond_nbd_refined 0.09 r_chiral_restr 0.089 r_bond_refined_d 0.008 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 702 Nucleic Acid Atoms Solvent Atoms 105 Heterogen Atoms 11
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling CNS refinement REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection CNS phasing