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p-nitrophenyl phosphatase from Archaeoglobus fulgidus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 294 0.1 M Tris buffer, 0.2 M calcium chloride, 26% PEG-3350, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.12 41.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.252 α = 74.99 b = 68.843 β = 87.33 c = 70.154 γ = 85.76
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 315 2006-10-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9792 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 2 37.2 95.1 0.09 11.1 3.8 62618 62618 40
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) 2 2.03 62.7 0.522 1.99 2.8 2046
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 2 37.2 62618 62618 3161 95 0.1715 0.1715 0.1692 0.1716 0.2134 0.2129 RANDOM 33.606
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] 0.71 0.2 0.09 -0.37 0.65 -0.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.066 r_dihedral_angle_4_deg 19.64 r_dihedral_angle_3_deg 17.047 r_dihedral_angle_1_deg 6.119 r_scangle_it 4.158 r_scbond_it 2.547 r_angle_refined_deg 1.578 r_mcangle_it 1.564 r_angle_other_deg 0.929 r_mcbond_it 0.888
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.066 r_dihedral_angle_4_deg 19.64 r_dihedral_angle_3_deg 17.047 r_dihedral_angle_1_deg 6.119 r_scangle_it 4.158 r_scbond_it 2.547 r_angle_refined_deg 1.578 r_mcangle_it 1.564 r_angle_other_deg 0.929 r_mcbond_it 0.888 r_mcbond_other 0.239 r_chiral_restr 0.096 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8060 Nucleic Acid Atoms Solvent Atoms 451 Heterogen Atoms 8
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction SBC-Collect data collection HKL-2000 data reduction HKL-2000 data scaling SHELXD phasing MLPHARE phasing DM phasing SOLVE phasing RESOLVE phasing HKL-3000 phasing