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Cysteine Synthase from Trypanosoma theileri with PLP bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4AIR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 Ammonium sulfate, Sodium cacodylate
Crystal Properties Matthews coefficient Solvent content 3.77 67.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 187.303 α = 90 b = 187.303 β = 90 c = 187.303 γ = 90
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 2021-07-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.9762 Diamond I24
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.75 76.47 100 0.997 23.5 56.3 28493
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.75 2.8 0.962
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-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4AIR 2.75 76.466 28475 1448 99.993 0.151 0.1478 0.2085 0.1767 65.938
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.798 r_dihedral_angle_3_deg 19.454 r_lrange_it 16.209 r_lrange_other 16.188 r_scangle_it 14.844 r_scangle_other 14.842 r_dihedral_angle_6_deg 14.811 r_mcangle_it 12.824 r_mcangle_other 12.823 r_scbond_it 11.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.798 r_dihedral_angle_3_deg 19.454 r_lrange_it 16.209 r_lrange_other 16.188 r_scangle_it 14.844 r_scangle_other 14.842 r_dihedral_angle_6_deg 14.811 r_mcangle_it 12.824 r_mcangle_other 12.823 r_scbond_it 11.68 r_scbond_other 11.678 r_mcbond_it 9.789 r_mcbond_other 9.789 r_dihedral_angle_1_deg 8.462 r_angle_refined_deg 2.246 r_angle_other_deg 0.714 r_symmetry_nbd_refined 0.288 r_nbd_refined 0.223 r_xyhbond_nbd_refined 0.205 r_nbd_other 0.203 r_symmetry_nbd_other 0.201 r_nbtor_refined 0.176 r_ncsr_local_group_1 0.133 r_chiral_restr 0.098 r_symmetry_nbtor_other 0.088 r_symmetry_xyhbond_nbd_refined 0.035 r_bond_refined_d 0.014 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 4827 Nucleic Acid Atoms Solvent Atoms 141 Heterogen Atoms 61
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing