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Bacterial chalcone isomerase with taxifolin chalcone
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4D06
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 6.8 mg/ml CHI 50 mM Na phosphate, pH 6.8. Precipitant 1.8 M (NH4)2SO4, 0.2 M NaCl, 0.1 M HEPES pH 7.5.
Soaking for 10 min in 2.5 mM taxifolin (2.5% ethanol)
Crystal Properties Matthews coefficient Solvent content 4.46 72.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 173.823 α = 90 b = 193.154 β = 90 c = 205.288 γ = 90
Symmetry Space Group I 21 21 21
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 2016-11-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.9184 BESSY 14.2
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 2.13 48.82 99.5 0.188 1 10.74 7.56 191642 36.5
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 2.13 2.25 98.3 1.1 0.33 1.93 7.56
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 4D06 2.15 48.29 183628 2035 99.69 0.1635 0.1632 0.1735 0.1897 0.202 RANDOM 35.332
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] -0.17 -0.92 1.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.947 r_dihedral_angle_1_deg 7.731 r_dihedral_angle_2_deg 7.186 r_angle_refined_deg 1.536 r_angle_other_deg 0.504 r_chiral_restr 0.074 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12794 Nucleic Acid Atoms Solvent Atoms 1801 Heterogen Atoms 161
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing