4BO0

Crystal structure of 3-oxoacyl-(acyl-carrier-protein) reductase (FabG) from Pseudomonas aeruginosa in complex with 1-(4-methoxy-1- methylindazol-3-yl)-3-(2-methoxyphenyl)urea at 2.4A resolution


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4BNWPDB ENTRY 4BNW

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
170.24 M SODIUM MALONATE PH 7.0, 20% (W/V) PEG3350, 1MM 1-(4-METHOXY-1-METHYLINDAZOL-3-YL)-3-(2-METHOXYPHENYL)UREA, FINAL PROTEIN CONCENTRATION 6.7 MG/ML
Crystal Properties
Matthews coefficientSolvent content
1.9938.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 55.323α = 90
b = 108.73β = 90
c = 148.639γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMIRRORS2012-09-29MSINGLE 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
12.429.7398.80.0714.73.735336-331.9
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)
12.42.5199.30.543.23.8

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 4BNW2.429.7233534176398.250.257120.255060.29653RANDOM43.42
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]
1.69-2.520.83
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.163
r_dihedral_angle_4_deg18.74
r_dihedral_angle_3_deg15.899
r_dihedral_angle_1_deg5.401
r_mcangle_it4.049
r_mcbond_it2.584
r_mcbond_other2.581
r_scbond_it2.556
r_angle_refined_deg1.361
r_angle_other_deg1.256
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.163
r_dihedral_angle_4_deg18.74
r_dihedral_angle_3_deg15.899
r_dihedral_angle_1_deg5.401
r_mcangle_it4.049
r_mcbond_it2.584
r_mcbond_other2.581
r_scbond_it2.556
r_angle_refined_deg1.361
r_angle_other_deg1.256
r_chiral_restr0.067
r_bond_refined_d0.011
r_bond_other_d0.006
r_gen_planes_refined0.006
r_gen_planes_other0.005
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_it
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 Atoms6938
Nucleic Acid Atoms
Solvent Atoms49
Heterogen Atoms49

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing