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E. coli dihydropteroate synthase complexed with pteroic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AJ2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 281 0.134M magnesium sulfate
19.7 %w/v/ PEG8000
0.1M sodium cacodylate, pH 6.03
Protein concentration 11.1 mg.mL-1
1:1 (150:150 nL) reservoir:protein
Cocrystallisation
Crystal Properties Matthews coefficient Solvent content 2.57 52.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.541 α = 90 b = 83.868 β = 111.03 c = 83.933 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 CCD ADSC QUANTUM 210 2016-04-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.95370 Australian Synchrotron 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 2.04 47.03 98.9 0.058 0.999 25.4 7.4 39630
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 2.04 2.09 86.4 0.691 0.898 3.2 6.8
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1AJ2 2.04 47.03 37689 1932 99.68 0.21159 0.20964 0.25063 0.2084 RANDOM 37.75
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] 0.62 1.14 1.08 -1.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.737 r_dihedral_angle_3_deg 12.839 r_dihedral_angle_4_deg 12.317 r_long_range_B_refined 5.655 r_long_range_B_other 5.655 r_dihedral_angle_1_deg 5.45 r_scangle_other 5.018 r_scbond_other 3.866 r_scbond_it 3.865 r_mcangle_it 3.727
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.737 r_dihedral_angle_3_deg 12.839 r_dihedral_angle_4_deg 12.317 r_long_range_B_refined 5.655 r_long_range_B_other 5.655 r_dihedral_angle_1_deg 5.45 r_scangle_other 5.018 r_scbond_other 3.866 r_scbond_it 3.865 r_mcangle_it 3.727 r_mcangle_other 3.726 r_angle_other_deg 3.67 r_mcbond_it 3.015 r_mcbond_other 3.015 r_angle_refined_deg 1.327 r_chiral_restr 0.073 r_gen_planes_other 0.019 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4106 Nucleic Acid Atoms Solvent Atoms 139 Heterogen Atoms 56
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing