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The Crystal Structure of TNIK from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6RA7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 2.4M Sodium malonate dibasic monohydrate,7
Crystal Properties Matthews coefficient Solvent content 3.3 62.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 112.75 α = 90 b = 112.75 β = 90 c = 125.356 γ = 120
Symmetry Space Group P 31 2 1
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 PILATUS3 6M 2022-01-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 1.18071 CLSI 08ID-1
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 2.7 48.82 100 0.055 28.8 9.9 25806
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 2.7 2.83 1.106 2.3
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 2.7 45.535 25777 1226 99.961 0.201 0.1981 0.2033 0.2561 0.2601 80.368
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] -0.406 -0.203 -0.406 1.318
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.92 r_lrange_it 13.659 r_lrange_other 13.658 r_dihedral_angle_6_deg 11.159 r_scangle_it 7.795 r_scangle_other 7.794 r_mcangle_other 7.461 r_mcangle_it 7.46 r_dihedral_angle_2_deg 7.083 r_dihedral_angle_1_deg 5.805
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.92 r_lrange_it 13.659 r_lrange_other 13.658 r_dihedral_angle_6_deg 11.159 r_scangle_it 7.795 r_scangle_other 7.794 r_mcangle_other 7.461 r_mcangle_it 7.46 r_dihedral_angle_2_deg 7.083 r_dihedral_angle_1_deg 5.805 r_scbond_it 4.959 r_scbond_other 4.958 r_mcbond_it 4.855 r_mcbond_other 4.855 r_angle_refined_deg 0.984 r_angle_other_deg 0.347 r_nbd_refined 0.222 r_symmetry_nbd_other 0.194 r_xyhbond_nbd_refined 0.179 r_nbtor_refined 0.177 r_nbd_other 0.141 r_symmetry_nbd_refined 0.13 r_symmetry_nbtor_other 0.075 r_symmetry_xyhbond_nbd_refined 0.066 r_chiral_restr 0.047 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4699 Nucleic Acid Atoms Solvent Atoms 43 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing