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Crystal structure of human secreted phospholipase A2 group IIE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 277 2.2M Sodium chloride, 0.1M BIS-TRIS propane pH 7.0
Crystal Properties Matthews coefficient Solvent content 3.39 63.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.51 α = 90 b = 60.46 β = 90 c = 63.59 γ = 90
Symmetry Space Group P 21 2 2
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 2013-03-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.9793 SSRF BL17U
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 43.82 100 0.111 0.12 0.045 0.996 11.7 7.1 13175
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.06 100 0.601 0.648 0.239 0.836 7.3
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 2 43.82 12500 647 99.8 0.1867 0.1847 0.1922 0.226 0.2239 RANDOM 28.801
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] -0.23 0.65 -0.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.232 r_dihedral_angle_3_deg 13.84 r_dihedral_angle_4_deg 13.739 r_dihedral_angle_1_deg 5.923 r_angle_refined_deg 1.749 r_angle_other_deg 1.046 r_chiral_restr 0.094 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.232 r_dihedral_angle_3_deg 13.84 r_dihedral_angle_4_deg 13.739 r_dihedral_angle_1_deg 5.923 r_angle_refined_deg 1.749 r_angle_other_deg 1.046 r_chiral_restr 0.094 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 955 Nucleic Acid Atoms Solvent Atoms 105 Heterogen Atoms 26
Software Software Software Name Purpose MOSFLM data reduction Aimless data scaling MOLREP model building REFMAC refinement PDB_EXTRACT data extraction MOLREP phasing