3EK2

Crystal structure of eonyl-(acyl carrier protein) reductase from burkholderia pseudomallei 1719b


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1QSGpdb entry 1qsg, tetramer, modified

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17298JCSG+ SCREEN: 10% PEG 6000, 100MM HEPES PH 7.0, VAPOR DIFFUSION, TEMPERATURE 298K, pH 7.00, VAPOR DIFFUSION, SITTING DROP
Crystal Properties
Matthews coefficientSolvent content
2.3748.06

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.195α = 90
b = 122.195β = 90
c = 139.255γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR 3002008-08-01SINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 23-ID-BAPS23-ID-B

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
11.869.67395.50.1420.1423.74.782541
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.9297.70.5980.59814.5

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMR, MRTHROUGHOUTpdb entry 1qsg, tetramer, modified1.969.6738203682036409494.60.1780.1760.218RANDOM17.54
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]
-0.05-0.690.74
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.047
r_dihedral_angle_4_deg17.587
r_dihedral_angle_3_deg12.12
r_dihedral_angle_1_deg6.17
r_scangle_it4.071
r_scbond_it2.534
r_mcangle_it1.571
r_angle_refined_deg1.507
r_angle_other_deg0.985
r_mcbond_it0.89
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.047
r_dihedral_angle_4_deg17.587
r_dihedral_angle_3_deg12.12
r_dihedral_angle_1_deg6.17
r_scangle_it4.071
r_scbond_it2.534
r_mcangle_it1.571
r_angle_refined_deg1.507
r_angle_other_deg0.985
r_mcbond_it0.89
r_mcbond_other0.242
r_chiral_restr0.096
r_bond_refined_d0.018
r_gen_planes_refined0.007
r_bond_other_d0.001
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7399
Nucleic Acid Atoms
Solvent Atoms820
Heterogen Atoms1

Software

Software
Software NamePurpose
PHASERphasing
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling