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Crystal structure of red kidney bean purple acid phosphatase in complex with fluoride
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4KBP 4KBP chain B and C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4 291 2.3 M ammonium sulfate, 0.1 M sodium acetate pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.94 68.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.719 α = 90 b = 188.466 β = 90 c = 192.398 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 IMAGE PLATE RIGAKU RAXIS IV++ mirrors 2005-04-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ DW 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.2 33 89.4 0.075 0.075 7.3 3 142147 158646 48
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.26 68.4 0.34 0.34 2.1 1.5 9434
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4KBP chain B and C 2.2 33 158646 137596 13726 86.9 0.226 0.226 0.224 0.2438 0.254 RANDOM 36.624
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] -1.673 -1.085 2.759
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 2.679 c_scbond_it 1.91 c_mcangle_it 1.907 c_angle_d 1.233 c_mcbond_it 1.232 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13948 Nucleic Acid Atoms Solvent Atoms 547 Heterogen Atoms 287
Software Software Software Name Purpose CNS refinement PDB_EXTRACT data extraction CrystalClear data collection CrystalClear data reduction CrystalClear data scaling EPMR phasing