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CRYSTAL STRUCTURE OF HUMAN LIPOPROTEIN-ASSOCIATED PHOSPHOLIPASE A2 IN COMPLEX WITH A [1.1.1]BICYCLOPENTANE-CONTAINING INHIBITOR AT 1.91A RESOLUTION.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other In-house coordinates
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.3 293 Sodium chloride, PEG 3350, HEPES.
Crystal Properties Matthews coefficient Solvent content 2.49 50.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.28 α = 90 b = 91.56 β = 111.88 c = 51.65 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 PIXEL DECTRIS PILATUS 6M 2015-06-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.97626 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.91 47.93 98.7 0.094 0.992 7.8 3.4 33162 30.912
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.91 1.98 92.5 0.624 0.672 1.7 3.2
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT In-house coordinates 1.91 20 31474 1651 98.6 0.1637 0.1623 0.1732 0.1922 0.2027 RANDOM 35.812
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] -1.12 0.44 0.06 0.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.302 r_dihedral_angle_3_deg 10.69 r_dihedral_angle_4_deg 9.857 r_dihedral_angle_1_deg 4.494 r_mcangle_it 3.291 r_mcbond_it 2.293 r_mcbond_other 2.292 r_angle_refined_deg 1.386 r_angle_other_deg 0.906 r_chiral_restr 0.085
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.302 r_dihedral_angle_3_deg 10.69 r_dihedral_angle_4_deg 9.857 r_dihedral_angle_1_deg 4.494 r_mcangle_it 3.291 r_mcbond_it 2.293 r_mcbond_other 2.292 r_angle_refined_deg 1.386 r_angle_other_deg 0.906 r_chiral_restr 0.085 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2959 Nucleic Acid Atoms Solvent Atoms 332 Heterogen Atoms 48
Software Software Software Name Purpose XDS data reduction Aimless data scaling REFMAC phasing REFMAC refinement PDB_EXTRACT data extraction