2X3E

Crystal structure of 3-oxoacyl-(acyl carrier protein) synthase III, FabH from Pseudomonas aeruginosa PAO1


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1UB7PDB ENTRY 1UB7

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
14.52.8M DI-AMMONIUM-PHOSPHATE, 0.1M SODIUM CITRATE, PH4.5, 120MM AMMONIUM ACETATE.CRYOPROTECTED WITH 3.6M DI-AMMONIUM-PHOSPHATE, 50MM NACITRATE, PH4.5, 100MM AMMONIUM ACETATE
Crystal Properties
Matthews coefficientSolvent content
2.245

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.24α = 90
b = 69.24β = 90
c = 212.19γ = 120
Symmetry
Space GroupP 65

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMIRRORS2008-07-04MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-4ESRFID14-4

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
11.81100990.0816.93.649430
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)
11.811.85900.6122.3

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 1UB71.81213.249430265599.150.17090.169150.20377RANDOM9.929
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]
0.110.060.11-0.17
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.338
r_dihedral_angle_4_deg14.757
r_dihedral_angle_3_deg12.646
r_dihedral_angle_1_deg5.882
r_scangle_it1.849
r_scbond_it1.121
r_angle_refined_deg1.078
r_angle_other_deg0.816
r_mcangle_it0.648
r_mcbond_it0.342
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.338
r_dihedral_angle_4_deg14.757
r_dihedral_angle_3_deg12.646
r_dihedral_angle_1_deg5.882
r_scangle_it1.849
r_scbond_it1.121
r_angle_refined_deg1.078
r_angle_other_deg0.816
r_mcangle_it0.648
r_mcbond_it0.342
r_mcbond_other0.073
r_chiral_restr0.06
r_bond_refined_d0.007
r_gen_planes_refined0.003
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_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4640
Nucleic Acid Atoms
Solvent Atoms464
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALEPACKdata scaling
MOLREPphasing