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Structural basis for inhibition of human autotaxin by four novel compounds
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 20% PEG 3350, 0.3 M KSCN
Crystal Properties Matthews coefficient Solvent content 2.23 44.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.672 α = 99.44 b = 64.001 β = 108.39 c = 70.505 γ = 98.61
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 RAYONIX MX-325 2013-10-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 1.00 APS 21-ID-G
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 2.6 50 97.9 0.07 6.4 2 26104
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 2.6 2.69 97.8 0.391 2 2621
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 2.6 49.74 23441 1224 92.32 0.21136 0.20794 0.2124 0.27421 0.2698 RANDOM 66.977
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] -0.06 -0.03 0.16 -0.08 -0.18 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.383 r_dihedral_angle_4_deg 17.641 r_dihedral_angle_3_deg 16.697 r_long_range_B_refined 8.796 r_long_range_B_other 8.796 r_dihedral_angle_1_deg 7.023 r_mcangle_it 6.813 r_mcangle_other 6.812 r_scangle_other 6.642 r_mcbond_it 4.682
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.383 r_dihedral_angle_4_deg 17.641 r_dihedral_angle_3_deg 16.697 r_long_range_B_refined 8.796 r_long_range_B_other 8.796 r_dihedral_angle_1_deg 7.023 r_mcangle_it 6.813 r_mcangle_other 6.812 r_scangle_other 6.642 r_mcbond_it 4.682 r_mcbond_other 4.681 r_scbond_it 4.566 r_scbond_other 4.566 r_angle_refined_deg 1.604 r_angle_other_deg 0.855 r_chiral_restr 0.082 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001 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 5750 Nucleic Acid Atoms Solvent Atoms 18 Heterogen Atoms 89
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection SCALEPACK data scaling PHASER phasing PDB_EXTRACT data extraction