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Crystal structure of a complex formed between group II phospholipase A2 and aspirin at 1.86 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Q7A pdb entry 1Q7A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 293 Polyethylene glycol, ammonium sulphate, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.5 49.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.314 α = 90 b = 53.314 β = 90 c = 48.453 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 IMAGE PLATE MARRESEARCH monochromator 2004-05-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.86 20 98.5 0.092 6.5 11524
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.86 1.89 97.9 0.32 2.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT pdb entry 1Q7A 1.86 20 10807 545 98.51 0.1986 0.1986 0.19733 0.22403 RANDOM 23.501
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] 0.22 0.22 -0.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 20.163 r_dihedral_angle_1_deg 2.925 r_scangle_it 2.607 r_scbond_it 1.576 r_angle_refined_deg 1.524 r_mcangle_it 1.142 r_angle_other_deg 0.737 r_mcbond_it 0.59 r_nbd_refined 0.457 r_symmetry_vdw_other 0.259
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 20.163 r_dihedral_angle_1_deg 2.925 r_scangle_it 2.607 r_scbond_it 1.576 r_angle_refined_deg 1.524 r_mcangle_it 1.142 r_angle_other_deg 0.737 r_mcbond_it 0.59 r_nbd_refined 0.457 r_symmetry_vdw_other 0.259 r_nbd_other 0.219 r_symmetry_hbond_refined 0.198 r_xyhbond_nbd_refined 0.197 r_symmetry_vdw_refined 0.136 r_xyhbond_nbd_other 0.114 r_chiral_restr 0.076 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 940 Nucleic Acid Atoms Solvent Atoms 139 Heterogen Atoms 19
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing