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X-ray crystal structure of 1-arachidonoyl glycerol bound to the cyclooxygenase channel of R513H murine COX-2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CVU PDB entry 1CVU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 296 23-34% polyacrylic acid 5100, 100mM HEPES pH 7.5, 20mM MgCl2, VAPOR DIFFUSION, SITTING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 2.64 53.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.312 α = 90 b = 131.754 β = 90 c = 180.022 γ = 90
Symmetry Space Group I 2 2 2
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 ADSC QUANTUM 210 2009-04-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE A1 0.9780 CHESS A1
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 2.35 20 99.6 0.124 10.4 4.9 59835 -6 -3 33.2
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 2.35 2.48 100 0.576 2.7 5 8694
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 1CVU 2.35 19.99 -6 59835 56810 3024 99.54 0.16417 0.16157 0.1806 0.2136 0.2264 RANDOM 22.128
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] 0.59 0.31 -0.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.572 r_dihedral_angle_3_deg 15.022 r_dihedral_angle_4_deg 14.231 r_dihedral_angle_1_deg 5.593 r_scangle_it 3.154 r_scbond_it 1.922 r_angle_refined_deg 1.686 r_mcangle_it 0.947 r_mcbond_it 0.484 r_chiral_restr 0.097
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.572 r_dihedral_angle_3_deg 15.022 r_dihedral_angle_4_deg 14.231 r_dihedral_angle_1_deg 5.593 r_scangle_it 3.154 r_scbond_it 1.922 r_angle_refined_deg 1.686 r_mcangle_it 0.947 r_mcbond_it 0.484 r_chiral_restr 0.097 r_bond_refined_d 0.013 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8864 Nucleic Acid Atoms Solvent Atoms 666 Heterogen Atoms 378
Software Software Software Name Purpose Adxv data processing PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling