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Rat metallophosphodiesterase MPPED2 G252H Mutant
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.2 293 MnCl2, PEG 3350, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.33 47.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.06 α = 90 b = 69.385 β = 102.96 c = 47.234 γ = 90
Symmetry Space Group C 1 2 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 MAR CCD 165 mm monochromators, mirrors 2009-01-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 5.2R 0.99996 ELETTRA 5.2R
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 1.29 50 97.1 0.106 12.4 4 77182 74944 -3 13.88
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 1.29 1.32 89.7 0.378 3.5 4565
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 (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 1.29 19.68 77099 74916 7557 97.17 0.1675 0.165 0.1811 0.1905 0.1992 RANDOM 20.2378
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] 1.34 -0.2 0.19 -1.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.622 r_dihedral_angle_4_deg 13.559 r_dihedral_angle_3_deg 11.322 r_dihedral_angle_1_deg 6.383 r_sphericity_free 4.084 r_scangle_it 2.844 r_sphericity_bonded 2.836 r_scbond_it 2.51 r_rigid_bond_restr 2.113 r_mcangle_it 1.683
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.622 r_dihedral_angle_4_deg 13.559 r_dihedral_angle_3_deg 11.322 r_dihedral_angle_1_deg 6.383 r_sphericity_free 4.084 r_scangle_it 2.844 r_sphericity_bonded 2.836 r_scbond_it 2.51 r_rigid_bond_restr 2.113 r_mcangle_it 1.683 r_angle_refined_deg 1.295 r_mcbond_it 1.092 r_nbtor_refined 0.316 r_nbd_refined 0.197 r_symmetry_vdw_refined 0.166 r_xyhbond_nbd_refined 0.095 r_chiral_restr 0.091 r_symmetry_hbond_refined 0.044 r_bond_refined_d 0.009 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2213 Nucleic Acid Atoms Solvent Atoms 293 Heterogen Atoms 37
Software Software Software Name Purpose SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection DENZO data reduction