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GqqA- a novel type of quorum quenching acylases
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7ALZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 291 0.8 M Sodium succinate
Crystal Properties Matthews coefficient Solvent content 2.09 41.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.872 α = 90 b = 65.76 β = 104.27 c = 102.66 γ = 90
Symmetry Space Group P 1 21 1
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 PILATUS 6M 2018-10-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.0332 PETRA III, DESY P11
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) 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 2.5 49.35 99.44 0.04 1 29.35 6.8 34461
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.6 98.53 0.52 0.96 6.9
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 7ALZ 2.5 49.35 32460 2000 99.78 0.23434 0.23174 0.2354 0.27735 0.2773 RANDOM 35.57
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] 0.03 -0.29 0.89 -0.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.651 r_dihedral_angle_4_deg 15.914 r_dihedral_angle_3_deg 13.14 r_dihedral_angle_1_deg 6.028 r_long_range_B_refined 5.04 r_long_range_B_other 5.035 r_mcangle_it 2.715 r_mcangle_other 2.715 r_scangle_other 2.338 r_mcbond_it 1.587
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.651 r_dihedral_angle_4_deg 15.914 r_dihedral_angle_3_deg 13.14 r_dihedral_angle_1_deg 6.028 r_long_range_B_refined 5.04 r_long_range_B_other 5.035 r_mcangle_it 2.715 r_mcangle_other 2.715 r_scangle_other 2.338 r_mcbond_it 1.587 r_mcbond_other 1.587 r_scbond_it 1.373 r_scbond_other 1.372 r_angle_refined_deg 1.154 r_angle_other_deg 1.043 r_chiral_restr 0.116 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8497 Nucleic Acid Atoms Solvent Atoms 57 Heterogen Atoms
Software Software Software Name Purpose PHENIX refinement XDS data reduction XDS data scaling PHASER phasing