☰ Navigation Tabs
PqsR (MvfR) in complex with antagonist 19
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4JVC 4JVC, 6Q7W experimental model PDB 6Q7W 4JVC, 6Q7W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.9 293.15 100 mM Sodium citrate, 0.2 M Ammonium Acetate and 3% MPD
Crystal Properties Matthews coefficient Solvent content 4.508939 72.7378
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.318 α = 90 b = 119.318 β = 90 c = 114.758 γ = 120
Symmetry Space Group P 65 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 PIXEL DECTRIS EIGER X 16M 2019-05-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 59.73 100 0.999 17.1 19.2 10169
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.18 1.677 0.932 1.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4JVC, 6Q7W 3 59.73 10138 428 99.961 0.196 0.1935 0.1939 0.2551 0.2619 127.924
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] 4.516 2.258 4.516 -14.651
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.598 r_lrange_it 23.198 r_lrange_other 23.196 r_scangle_it 17.473 r_scangle_other 17.466 r_dihedral_angle_3_deg 17.329 r_mcangle_it 15.287 r_mcangle_other 15.249 r_dihedral_angle_4_deg 14.845 r_scbond_it 12.393
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.598 r_lrange_it 23.198 r_lrange_other 23.196 r_scangle_it 17.473 r_scangle_other 17.466 r_dihedral_angle_3_deg 17.329 r_mcangle_it 15.287 r_mcangle_other 15.249 r_dihedral_angle_4_deg 14.845 r_scbond_it 12.393 r_scbond_other 12.388 r_mcbond_it 11.582 r_mcbond_other 11.488 r_dihedral_angle_1_deg 7.042 r_angle_refined_deg 1.343 r_angle_other_deg 1.333 r_symmetry_nbd_refined 0.233 r_nbd_other 0.218 r_nbd_refined 0.208 r_symmetry_nbd_other 0.196 r_symmetry_xyhbond_nbd_refined 0.188 r_nbtor_refined 0.173 r_xyhbond_nbd_refined 0.164 r_symmetry_nbtor_other 0.078 r_chiral_restr 0.055 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1598 Nucleic Acid Atoms Solvent Atoms 8 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing