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The Crystal Structure of TTBK1 from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7JXX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.5M LiCl, 0.1M Tris-HCl pH8.5, 28% PEG 6000
Crystal Properties Matthews coefficient Solvent content 2.18 43.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 170.905 α = 90 b = 40.204 β = 103.725 c = 49.533 γ = 90
Symmetry Space Group C 1 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 EIGER X 9M 2023-11-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.95355 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 2.6 48.165 99 0.118 8.4 5.2 10211
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 2.6 2.72 0.907
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 2.6 48.165 10210 476 98.838 0.205 0.2009 0.2057 0.2733 0.2765 58.329
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] 3.551 -1.409 3.566 -5.744
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.417 r_dihedral_angle_3_deg 15.066 r_dihedral_angle_4_deg 13.914 r_lrange_other 11.588 r_lrange_it 11.587 r_dihedral_angle_1_deg 6.914 r_mcangle_it 6.344 r_mcangle_other 6.342 r_scangle_it 6.077 r_scangle_other 6.076
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.417 r_dihedral_angle_3_deg 15.066 r_dihedral_angle_4_deg 13.914 r_lrange_other 11.588 r_lrange_it 11.587 r_dihedral_angle_1_deg 6.914 r_mcangle_it 6.344 r_mcangle_other 6.342 r_scangle_it 6.077 r_scangle_other 6.076 r_mcbond_it 4.071 r_mcbond_other 4.067 r_scbond_it 3.656 r_scbond_other 3.655 r_angle_refined_deg 1.336 r_angle_other_deg 1.15 r_nbd_refined 0.187 r_symmetry_nbd_other 0.167 r_xyhbond_nbd_refined 0.164 r_nbtor_refined 0.159 r_nbd_other 0.152 r_symmetry_nbtor_other 0.075 r_symmetry_nbd_refined 0.074 r_chiral_restr 0.057 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2389 Nucleic Acid Atoms Solvent Atoms 39 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing