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New ligand for thaumatin discovered using acoustic high throughput screening
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1THI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.6 291 1.5M NaK Tartrate, 0.1M Bis Tris pH 6.6
Crystal Properties Matthews coefficient Solvent content 2.81 58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.837 α = 90 b = 57.837 β = 90 c = 149.584 γ = 90
Symmetry Space Group P 41 21 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 PSI PILATUS 6M 2014-06-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.1 NSLS X25
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 1.2 53.95 89.83 0.029 42.81 14.6 68461 68461
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 1.2 1.22 23.6 0.347 1 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 (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 1THI 1.2 53.95 68461 3518 89.83 0.1455 0.14461 0.1439 0.16275 0.1619 RANDOM 17.345
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] 0.36 0.36 -0.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.249 r_dihedral_angle_4_deg 22.777 r_dihedral_angle_1_deg 12.149 r_dihedral_angle_3_deg 12.018 r_long_range_B_refined 10.048 r_long_range_B_other 9.005 r_scangle_other 5.745 r_scbond_other 3.842 r_scbond_it 3.836 r_angle_refined_deg 2.867
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.249 r_dihedral_angle_4_deg 22.777 r_dihedral_angle_1_deg 12.149 r_dihedral_angle_3_deg 12.018 r_long_range_B_refined 10.048 r_long_range_B_other 9.005 r_scangle_other 5.745 r_scbond_other 3.842 r_scbond_it 3.836 r_angle_refined_deg 2.867 r_mcangle_other 2.419 r_mcangle_it 2.394 r_mcbond_it 1.623 r_mcbond_other 1.578 r_angle_other_deg 1.072 r_chiral_restr 0.179 r_bond_refined_d 0.033 r_gen_planes_refined 0.013 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 1551 Nucleic Acid Atoms Solvent Atoms 442 Heterogen Atoms 78
Software Software Software Name Purpose REFMAC refinement