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Crystal Structure of the complex of phospholipase A2 with indole acetic acid at 1.2 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SXK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.8 300 0.2M ammonium sulphate, 30% PEG 4000, pH 6.8, VAPOR DIFFUSION, SITTING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.4 48.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.31 α = 90 b = 52.31 β = 90 c = 47.835 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 200 CCD MARRESEARCH mirror 2006-10-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.90 EMBL/DESY, HAMBURG X11
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 1.2 50 100 0.049 50.6 24.2 40258 11.9
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) 1.2 1.23 100 0.446 4.5
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1SXK 1.2 50 40258 39429 829 99.66 0.18863 0.18823 0.20756 RANDOM 13.624
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] 0.15 0.15 -0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.68 r_dihedral_angle_3_deg 11.68 r_dihedral_angle_4_deg 7.244 r_dihedral_angle_1_deg 5.574 r_scangle_it 2.406 r_scbond_it 1.64 r_angle_refined_deg 1.418 r_mcangle_it 1.409 r_mcbond_it 0.789 r_angle_other_deg 0.785
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.68 r_dihedral_angle_3_deg 11.68 r_dihedral_angle_4_deg 7.244 r_dihedral_angle_1_deg 5.574 r_scangle_it 2.406 r_scbond_it 1.64 r_angle_refined_deg 1.418 r_mcangle_it 1.409 r_mcbond_it 0.789 r_angle_other_deg 0.785 r_nbd_refined 0.405 r_symmetry_vdw_other 0.237 r_nbd_other 0.21 r_nbtor_refined 0.191 r_xyhbond_nbd_refined 0.172 r_mcbond_other 0.168 r_symmetry_hbond_refined 0.162 r_symmetry_vdw_refined 0.15 r_nbtor_other 0.091 r_chiral_restr 0.071 r_bond_other_d 0.012 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 945 Nucleic Acid Atoms Solvent Atoms 228 Heterogen Atoms 38
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection AUTOMAR data reduction AMoRE phasing