☰ Navigation Tabs
Flavonoid-responsive Regulator FrrA in complex with Genistein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6G87
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 6mg/ml FrrA in 20 mM Na2HPO4, 100 mM imidazole, pH 7.5, 50 mM NaCl with equimolar Genistein in 70% Ethanol. Precipitant 20 % PEG 8000; 0.1 M CHES, pH 9.5.
Crystal Properties Matthews coefficient Solvent content 2.89 57.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.044 α = 90 b = 119.044 β = 90 c = 78.305 γ = 90
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-F 2015-10-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.97630 PETRA III, EMBL c/o DESY P13 (MX1)
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 2.599 119.1 99.1 0.091 0.998 11.52 3.44 65566 76.3
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 2.599 2.7 97.7 1.52 0.279 0.82 3.35
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 6G87 2.6 119.04 32099 1719 99.75 0.18984 0.18839 0.1963 0.21644 0.224 RANDOM 75.677
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] -0.72 -0.72 1.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.54 r_dihedral_angle_4_deg 19.535 r_dihedral_angle_3_deg 18.295 r_long_range_B_other 11.38 r_long_range_B_refined 11.379 r_scangle_other 9.58 r_scbond_it 6.128 r_scbond_other 6.127 r_mcangle_it 6.023 r_mcangle_other 6.022
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.54 r_dihedral_angle_4_deg 19.535 r_dihedral_angle_3_deg 18.295 r_long_range_B_other 11.38 r_long_range_B_refined 11.379 r_scangle_other 9.58 r_scbond_it 6.128 r_scbond_other 6.127 r_mcangle_it 6.023 r_mcangle_other 6.022 r_dihedral_angle_1_deg 5.477 r_mcbond_it 4.107 r_mcbond_other 4.104 r_angle_refined_deg 1.678 r_angle_other_deg 1.438 r_chiral_restr 0.084 r_bond_refined_d 0.013 r_gen_planes_refined 0.009 r_bond_other_d 0.007 r_gen_planes_other 0.007 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6115 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 131
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing