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Aminodeoxychorismate synthase complex from Escherichia coli, with glutamine and chorismate added
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1I7S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293.15 MES, magnesium sulfate heptahydrate, glycerol
Crystal Properties Matthews coefficient Solvent content 2.69 54.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.184 α = 90 b = 109.946 β = 90 c = 175.619 γ = 90
Symmetry Space Group P 21 21 21
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 16M 2021-09-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.9762 PETRA III, EMBL c/o DESY P13 (MX1)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.64 46.639 99.97 0.1203 0.997 11.21 13.2 189833
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.64 1.699 99.99 1.797 0.677 1.21 13.3
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 1.64 46.639 189833 9423 99.983 0.171 0.1696 0.1697 0.1992 0.1996 33.526
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] -0.824 1.706 -0.882
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.758 r_dihedral_angle_4_deg 17.143 r_dihedral_angle_3_deg 13.998 r_lrange_it 7.607 r_lrange_other 7.561 r_dihedral_angle_1_deg 7.4 r_scangle_it 6.052 r_scangle_other 6.045 r_scbond_it 4.193 r_scbond_other 4.189
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.758 r_dihedral_angle_4_deg 17.143 r_dihedral_angle_3_deg 13.998 r_lrange_it 7.607 r_lrange_other 7.561 r_dihedral_angle_1_deg 7.4 r_scangle_it 6.052 r_scangle_other 6.045 r_scbond_it 4.193 r_scbond_other 4.189 r_mcangle_it 4.014 r_mcangle_other 4.014 r_dihedral_angle_other_2_deg 3.142 r_mcbond_it 2.961 r_mcbond_other 2.96 r_angle_refined_deg 1.667 r_angle_other_deg 1.417 r_nbd_refined 0.22 r_xyhbond_nbd_refined 0.213 r_nbd_other 0.209 r_symmetry_nbd_refined 0.194 r_symmetry_nbd_other 0.18 r_nbtor_refined 0.163 r_symmetry_xyhbond_nbd_refined 0.141 r_ncsr_local_group_1 0.133 r_symmetry_xyhbond_nbd_other 0.13 r_ncsr_local_group_2 0.096 r_chiral_restr 0.083 r_symmetry_nbtor_other 0.08 r_bond_refined_d 0.011 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10145 Nucleic Acid Atoms Solvent Atoms 999 Heterogen Atoms 142
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing