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Thaumatin Room-Temperature In-Situ, Shipped
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6RVO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 295 0.59 M di-ammonium tartrate
Crystal Properties Matthews coefficient Solvent content 2.87 57.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.202 α = 90 b = 58.202 β = 90 c = 150.459 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 DECTRIS EIGER2 X 4M 2024-10-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE VMXi 0.7749 Diamond VMXi
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 1.67 54.2 100 0.147 0.157 0.052 0.999 11.4 14.4 31026
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.67 1.7 1.895 2.236 1.159 0.372 5.9
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-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.67 54.2 30940 1539 99.987 0.153 0.1522 0.1504 0.1777 0.1777 22.717
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] 0.456 0.456 -0.912
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.529 r_dihedral_angle_3_deg 12.341 r_dihedral_angle_1_deg 6.918 r_dihedral_angle_2_deg 6.9 r_lrange_it 6.447 r_lrange_other 6.333 r_scangle_it 5.427 r_scangle_other 5.427 r_scbond_other 3.585 r_scbond_it 3.583
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.529 r_dihedral_angle_3_deg 12.341 r_dihedral_angle_1_deg 6.918 r_dihedral_angle_2_deg 6.9 r_lrange_it 6.447 r_lrange_other 6.333 r_scangle_it 5.427 r_scangle_other 5.427 r_scbond_other 3.585 r_scbond_it 3.583 r_mcangle_other 2.943 r_mcangle_it 2.938 r_mcbond_it 2.057 r_mcbond_other 2.052 r_angle_refined_deg 1.935 r_angle_other_deg 0.702 r_xyhbond_nbd_refined 0.476 r_symmetry_nbd_refined 0.307 r_nbd_refined 0.251 r_symmetry_nbd_other 0.202 r_nbtor_refined 0.194 r_nbd_other 0.17 r_symmetry_xyhbond_nbd_refined 0.1 r_symmetry_nbtor_other 0.094 r_chiral_restr 0.093 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1519 Nucleic Acid Atoms Solvent Atoms 149 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement Aimless data scaling MOLREP phasing Coot model building xia2.multiplex data reduction