2O50

The crystal structure of Toxoplasma gondii Enoyl acyl carrier protein reductase


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2O2YPDB ENTRY 2O2Y

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.52900.1M Tris, 25% (v/v) tert-Butanol, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties
Matthews coefficientSolvent content
2.3347.13

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 76.004α = 90
b = 76.004β = 90
c = 187.471γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMAR scanner 345 mm platemirrors2006-07-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU1.542

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.93099.80.1816.210.11375822
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.9399.70.654.5

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 2O2Y2.9301375873099.660.21280.209430.27732RANDOM39.201
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]
2.291.152.29-3.44
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.24
r_dihedral_angle_4_deg19.367
r_dihedral_angle_3_deg17.814
r_dihedral_angle_1_deg6.375
r_scangle_it1.749
r_angle_refined_deg1.389
r_scbond_it1.128
r_mcangle_it0.714
r_mcbond_it0.395
r_nbtor_refined0.313
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.24
r_dihedral_angle_4_deg19.367
r_dihedral_angle_3_deg17.814
r_dihedral_angle_1_deg6.375
r_scangle_it1.749
r_angle_refined_deg1.389
r_scbond_it1.128
r_mcangle_it0.714
r_mcbond_it0.395
r_nbtor_refined0.313
r_nbd_refined0.241
r_symmetry_vdw_refined0.193
r_symmetry_hbond_refined0.182
r_xyhbond_nbd_refined0.171
r_chiral_restr0.093
r_bond_refined_d0.012
r_gen_planes_refined0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4288
Nucleic Acid Atoms
Solvent Atoms11
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data collection
MOSFLMdata reduction
CCP4data scaling
AMoREphasing