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Structural Studies of Pterin-Based Inhibitors of Dihydropteroate Synthase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TX0 PDB entry 1TX0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 291 LITHIUM SULFATE, propane, Bis-Tris, pH 9, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.86 57.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.317 α = 90 b = 99.317 β = 90 c = 264.43 γ = 120
Symmetry Space Group P 62 2 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 MARRESEARCH 2008-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0000 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.2 48.81 97.7 0.099 29.4 12 39203
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.28 91.7 0.35 3.6 7.7 3581
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1TX0 2.2 48.81 39150 1972 97.78 0.20733 0.20527 0.2036 0.24661 0.2411 RANDOM 54.047
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] 0.9 0.45 0.9 -1.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.375 r_dihedral_angle_4_deg 18.646 r_dihedral_angle_3_deg 15.866 r_dihedral_angle_1_deg 6.057 r_scangle_it 4.667 r_scbond_it 3.013 r_angle_refined_deg 1.741 r_mcangle_it 1.728 r_mcbond_it 1.265 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.375 r_dihedral_angle_4_deg 18.646 r_dihedral_angle_3_deg 15.866 r_dihedral_angle_1_deg 6.057 r_scangle_it 4.667 r_scbond_it 3.013 r_angle_refined_deg 1.741 r_mcangle_it 1.728 r_mcbond_it 1.265 r_nbtor_refined 0.302 r_symmetry_vdw_refined 0.278 r_nbd_refined 0.209 r_xyhbond_nbd_refined 0.117 r_chiral_restr 0.115 r_symmetry_hbond_refined 0.106 r_bond_refined_d 0.02 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4094 Nucleic Acid Atoms Solvent Atoms 201 Heterogen Atoms 56
Software Software Software Name Purpose SERGUI data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling