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The crystal structure of Toxoplasma gondii Enoyl acyl carrier protein reductase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2O2Y PDB ENTRY 2O2Y
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 290 0.1M Tris, 25% (v/v) tert-Butanol, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.33 47.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.004 α = 90 b = 76.004 β = 90 c = 187.471 γ = 120
Symmetry Space Group P 32 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 IMAGE PLATE MAR scanner 345 mm plate mirrors 2006-07-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.542
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.9 30 99.8 0.18 16.2 10.1 13758 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.9 3 99.7 0.65 4.5
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 2O2Y 2.9 30 13758 730 99.66 0.2128 0.20943 0.2151 0.27732 0.2898 RANDOM 39.201
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] 2.29 1.15 2.29 -3.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.24 r_dihedral_angle_4_deg 19.367 r_dihedral_angle_3_deg 17.814 r_dihedral_angle_1_deg 6.375 r_scangle_it 1.749 r_angle_refined_deg 1.389 r_scbond_it 1.128 r_mcangle_it 0.714 r_mcbond_it 0.395 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.24 r_dihedral_angle_4_deg 19.367 r_dihedral_angle_3_deg 17.814 r_dihedral_angle_1_deg 6.375 r_scangle_it 1.749 r_angle_refined_deg 1.389 r_scbond_it 1.128 r_mcangle_it 0.714 r_mcbond_it 0.395 r_nbtor_refined 0.313 r_nbd_refined 0.241 r_symmetry_vdw_refined 0.193 r_symmetry_hbond_refined 0.182 r_xyhbond_nbd_refined 0.171 r_chiral_restr 0.093 r_bond_refined_d 0.012 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4288 Nucleic Acid Atoms Solvent Atoms 11 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection MOSFLM data reduction CCP4 data scaling AMoRE phasing