☰ Navigation Tabs
X-ray crystal structure of NS-398 bound to the cyclooxygenase channel of cyclooxygenase-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 2.54 51.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.428 α = 90 b = 131.213 β = 90 c = 179.568 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 2008-05-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE A1 0.9777 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 3 20 99.6 0.124 9.8 3.9 28681 27226 63.7
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 3 3.16 100 0.475 3 4 4158
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 3 19.99 28681 27226 1452 99.81 0.17805 0.17805 0.17556 0.1755 0.22457 0.2238 RANDOM 33.927
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 -1 0.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.484 r_dihedral_angle_3_deg 16.511 r_dihedral_angle_4_deg 15.206 r_dihedral_angle_1_deg 5.459 r_scangle_it 2.331 r_angle_refined_deg 1.465 r_scbond_it 1.3 r_mcangle_it 0.905 r_mcbond_it 0.446 r_chiral_restr 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.484 r_dihedral_angle_3_deg 16.511 r_dihedral_angle_4_deg 15.206 r_dihedral_angle_1_deg 5.459 r_scangle_it 2.331 r_angle_refined_deg 1.465 r_scbond_it 1.3 r_mcangle_it 0.905 r_mcbond_it 0.446 r_chiral_restr 0.09 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8750 Nucleic Acid Atoms Solvent Atoms 120 Heterogen Atoms 346
Software Software Software Name Purpose Adxv data processing PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling