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E coli. CTP synthase in complex with CTP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other 5TKV experimental model PDB 5TKV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 277 0.1 M TRIS-Cl pH 8.0 (room temperature), 5 mM magnesium chloride, 1.15 - 1.4 M ammonium sulfate, 15 mg/mL CTPS.
Crystal Properties Matthews coefficient Solvent content 4.54 72.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 164.707 α = 90 b = 103.907 β = 90 c = 131.835 γ = 90
Symmetry Space Group P 21 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 100 CCD RAYONIX MX-300 2019-05-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08B1-1 0.978 CLSI 08B1-1
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 2.03 44 97.3 0.166 0.172 0.045 0.97 4.83 14 142127 33.4
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 2.03 2.1 73.4 0.851 0.887 0.248 0.892 1.15 12.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 5TKV 2.03 44 142127 7162 97.354 0.193 0.1923 0.1994 0.2144 0.2211 35.822
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] 0.003 -0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.327 r_dihedral_angle_4_deg 12.36 r_dihedral_angle_3_deg 11.859 r_dihedral_angle_1_deg 5.578 r_lrange_it 4.383 r_lrange_other 4.092 r_mcangle_it 1.857 r_mcangle_other 1.856 r_scangle_it 1.615 r_scangle_other 1.614
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.327 r_dihedral_angle_4_deg 12.36 r_dihedral_angle_3_deg 11.859 r_dihedral_angle_1_deg 5.578 r_lrange_it 4.383 r_lrange_other 4.092 r_mcangle_it 1.857 r_mcangle_other 1.856 r_scangle_it 1.615 r_scangle_other 1.614 r_angle_refined_deg 1.158 r_angle_other_deg 1.092 r_mcbond_it 1.037 r_mcbond_other 1.037 r_scbond_it 0.916 r_scbond_other 0.916 r_symmetry_nbd_refined 0.173 r_nbd_other 0.168 r_nbd_refined 0.165 r_symmetry_nbd_other 0.16 r_nbtor_refined 0.141 r_xyhbond_nbd_refined 0.118 r_symmetry_xyhbond_nbd_refined 0.098 r_symmetry_nbtor_other 0.071 r_chiral_restr 0.044 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8326 Nucleic Acid Atoms Solvent Atoms 847 Heterogen Atoms 86
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing