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Ajulemic acid, a synthetic cannabinoid bound to PPAR gamma
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PRG PDB ENTRY 1PRG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 283 4M sodium formate, VAPOR DIFFUSION, HANGING DROP, temperature 283K
Crystal Properties Matthews coefficient Solvent content 3.82 67.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.344 α = 100.1 b = 78.139 β = 106.41 c = 104.231 γ = 90.01
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate MIRROR 2006-01-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.8 30 93.8 0.09 0.09 8.1 1.8 42977 1.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.8 2.9 90.1 0.35 0.35 1.8 1.6
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 PDB ENTRY 1PRG 2.8 10 39850 2128 93.84 0.219 0.217 0.2184 0.267 0.2595 RANDOM 39.208
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] -0.01 -1.29 0.43 -2.21 0.02 2.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.276 r_dihedral_angle_3_deg 18.942 r_dihedral_angle_4_deg 17.747 r_dihedral_angle_1_deg 5.511 r_scangle_it 2.046 r_angle_refined_deg 1.586 r_scbond_it 1.223 r_mcangle_it 1.007 r_mcbond_it 0.534 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.276 r_dihedral_angle_3_deg 18.942 r_dihedral_angle_4_deg 17.747 r_dihedral_angle_1_deg 5.511 r_scangle_it 2.046 r_angle_refined_deg 1.586 r_scbond_it 1.223 r_mcangle_it 1.007 r_mcbond_it 0.534 r_nbtor_refined 0.314 r_symmetry_vdw_refined 0.251 r_nbd_refined 0.224 r_chiral_restr 0.175 r_symmetry_hbond_refined 0.158 r_xyhbond_nbd_refined 0.136 r_bond_refined_d 0.012 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8524 Nucleic Acid Atoms Solvent Atoms 213 Heterogen Atoms 232
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing