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Synthesis, Biological Activity, and X-Ray Crystal Structural Analysis of Diaryl Ether Inhibitors of Malarial Enoyl ACP Reductase. Part 1:4'-Substituted Triclosan Derivatives
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NHD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 pH 5.60, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.7 54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 131.455 α = 90 b = 131.455 β = 90 c = 82.536 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 IMAGE PLATE MACSCIENCE OSMIC 2005-02-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3 92.953 14987
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 1NHD 3 92.85 14190 755 99.8 0.195 0.191 0.1916 0.278 0.2809 RANDOM 30.27
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] 1.66 1.66 -3.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.191 r_dihedral_angle_3_deg 20.883 r_dihedral_angle_4_deg 19.59 r_scangle_it 7.021 r_dihedral_angle_1_deg 6.183 r_scbond_it 4.838 r_mcangle_it 4.262 r_mcbond_it 2.573 r_angle_refined_deg 1.627 r_nbtor_refined 0.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.191 r_dihedral_angle_3_deg 20.883 r_dihedral_angle_4_deg 19.59 r_scangle_it 7.021 r_dihedral_angle_1_deg 6.183 r_scbond_it 4.838 r_mcangle_it 4.262 r_mcbond_it 2.573 r_angle_refined_deg 1.627 r_nbtor_refined 0.322 r_nbd_refined 0.235 r_symmetry_hbond_refined 0.233 r_symmetry_vdw_refined 0.232 r_xyhbond_nbd_refined 0.151 r_chiral_restr 0.103 r_bond_refined_d 0.013 r_gen_planes_refined 0.004 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 4556 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 138
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling CNS refinement XDIP data collection XDIP data reduction CNS phasing