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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 2.79 55.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.063 α = 90 b = 98.063 β = 90 c = 263.945 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 2008-11-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 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 48.21 94.2 0.102 32.3 11.5 48615
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 2.07 60.8 0.346 3.1 6.7
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 PDB entry 1TX0 2 48.21 48547 2447 94.23 0.20361 0.20176 0.23735 0.2639 RANDOM 40.345
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] 1.43 0.72 1.43 -2.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.22 r_dihedral_angle_4_deg 18.807 r_dihedral_angle_3_deg 15.785 r_dihedral_angle_1_deg 5.24 r_scangle_it 3.786 r_scbond_it 2.34 r_mcangle_it 1.482 r_angle_refined_deg 1.317 r_mcbond_it 1.007 r_symmetry_hbond_refined 0.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.22 r_dihedral_angle_4_deg 18.807 r_dihedral_angle_3_deg 15.785 r_dihedral_angle_1_deg 5.24 r_scangle_it 3.786 r_scbond_it 2.34 r_mcangle_it 1.482 r_angle_refined_deg 1.317 r_mcbond_it 1.007 r_symmetry_hbond_refined 0.35 r_nbtor_refined 0.298 r_nbd_refined 0.202 r_symmetry_vdw_refined 0.194 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.096 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 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 4131 Nucleic Acid Atoms Solvent Atoms 256 Heterogen Atoms 73
Software Software Software Name Purpose SERGUI data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling