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Crystal structure of LTA4H bound to a selective inhibitor against LTB4 generation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SQM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 20 % PEG 8000, 0.1 M Sodium Acetate, 0.15 mM Imidazole pH7.8, 5 mM YbCl3
Crystal Properties Matthews coefficient Solvent content 2.42 49.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.25 α = 90 b = 87.05 β = 90 c = 99.96 γ = 90
Symmetry Space Group P 21 21 21
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-F 2015-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.97949 Diamond I02
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 2.3 100 96.4 0.142 5.9 3.8 29612
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 2.3 2.42 94.1 0.497 1.9 3.3 4129
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 MOLECULAR REPLACEMENT THROUGHOUT 1SQM 2.3 65.65 28048 1536 95.4 0.24196 0.23946 0.2409 0.28758 0.2898 RANDOM 26.975
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] 0.07 -4.48 4.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.885 r_dihedral_angle_4_deg 21.864 r_dihedral_angle_3_deg 16.256 r_long_range_B_refined 6.141 r_long_range_B_other 6.141 r_dihedral_angle_1_deg 5.842 r_scangle_other 4.114 r_scbond_it 2.934 r_scbond_other 2.933 r_mcangle_other 2.746
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.885 r_dihedral_angle_4_deg 21.864 r_dihedral_angle_3_deg 16.256 r_long_range_B_refined 6.141 r_long_range_B_other 6.141 r_dihedral_angle_1_deg 5.842 r_scangle_other 4.114 r_scbond_it 2.934 r_scbond_other 2.933 r_mcangle_other 2.746 r_mcangle_it 2.745 r_mcbond_it 1.778 r_mcbond_other 1.776 r_angle_refined_deg 1.712 r_angle_other_deg 1.054 r_chiral_restr 0.088 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4844 Nucleic Acid Atoms Solvent Atoms 437 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing