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Thaumatin structure determined using SoS chip at ID29 (serial crystallography)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5FGT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 7 293 0.8 M NA, K TARTRATE, 0.1 M NA HEPES
Crystal Properties Matthews coefficient Solvent content 2.83 56.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.849 α = 90 b = 57.849 β = 90 c = 150.328 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 293 PIXEL PSI JUNGFRAU 4M 2023-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 1.073 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Split (All) 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 1.69 38 100 0.067 15.1 4475 29237
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Split (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.69 1.8 0.73
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.69 37.904 29237 1412 98.934 0.158 0.1576 0.1688 0.1712 28.84
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] 0.389 0.389 -0.777
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.535 r_dihedral_angle_3_deg 13.898 r_lrange_it 8.558 r_lrange_other 8.523 r_dihedral_angle_2_deg 8.124 r_scangle_other 7.439 r_scangle_it 7.438 r_dihedral_angle_1_deg 6.946 r_scbond_other 4.924 r_scbond_it 4.922
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.535 r_dihedral_angle_3_deg 13.898 r_lrange_it 8.558 r_lrange_other 8.523 r_dihedral_angle_2_deg 8.124 r_scangle_other 7.439 r_scangle_it 7.438 r_dihedral_angle_1_deg 6.946 r_scbond_other 4.924 r_scbond_it 4.922 r_mcangle_other 3.388 r_mcangle_it 3.385 r_mcbond_it 2.499 r_mcbond_other 2.488 r_angle_refined_deg 1.751 r_angle_other_deg 0.64 r_xyhbond_nbd_refined 0.238 r_symmetry_nbd_refined 0.214 r_nbd_refined 0.21 r_nbd_other 0.21 r_symmetry_nbd_other 0.2 r_symmetry_xyhbond_nbd_refined 0.197 r_nbtor_refined 0.194 r_symmetry_nbtor_other 0.095 r_chiral_restr 0.089 r_xyhbond_nbd_other 0.028 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1546 Nucleic Acid Atoms Solvent Atoms 128 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement CrystFEL data reduction CrystFEL data scaling PHASER phasing