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Thaumatin Room-Temperature In-Situ, Grown On-Site
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 57.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.2 α = 90 b = 58.2 β = 90 c = 150.445 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 2024-10-03 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 1.78 54.2 99.9 0.163 0.183 0.078 0.997 7.9 8 25718
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 1.78 1.82 1.397 1.747 1.023 0.337 4.5
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 1.78 54.2 25638 1257 99.856 0.16 0.1587 0.1898 0.1693 24.397
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] 0.506 0.506 -1.011
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.321 r_dihedral_angle_3_deg 12.893 r_dihedral_angle_2_deg 7.722 r_dihedral_angle_1_deg 7.455 r_lrange_it 7.109 r_lrange_other 7.075 r_scangle_it 6.259 r_scangle_other 6.259 r_scbond_other 4.222 r_scbond_it 4.219
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.321 r_dihedral_angle_3_deg 12.893 r_dihedral_angle_2_deg 7.722 r_dihedral_angle_1_deg 7.455 r_lrange_it 7.109 r_lrange_other 7.075 r_scangle_it 6.259 r_scangle_other 6.259 r_scbond_other 4.222 r_scbond_it 4.219 r_mcangle_it 3.331 r_mcangle_other 3.33 r_mcbond_it 2.424 r_mcbond_other 2.409 r_angle_refined_deg 2.143 r_angle_other_deg 0.792 r_xyhbond_nbd_refined 0.506 r_symmetry_nbd_refined 0.43 r_nbd_refined 0.252 r_symmetry_nbd_other 0.205 r_nbtor_refined 0.192 r_nbd_other 0.164 r_chiral_restr 0.111 r_symmetry_xyhbond_nbd_refined 0.111 r_symmetry_nbtor_other 0.097 r_bond_refined_d 0.015 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1528 Nucleic Acid Atoms Solvent Atoms 115 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement Aimless data scaling MOLREP phasing Coot model building xia2.multiplex data reduction