7OC1

Structure of Pseudomonas aeruginosa FabF mutant C164Q in complex with Platensimycin


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4JB6 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2980.24M NH4HCO2 and 31.2% PEG3350
Crystal Properties
Matthews coefficientSolvent content
2.1943.71

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 84.024α = 90
b = 137.199β = 90
c = 65.692γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 16M2019-02-28MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONMAX IV BEAMLINE BioMAX0.918399MAX IVBioMAX

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)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
11.868.691000.1020.1180.0450.99511.056.771222
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.81.8598.60.3010.3520.1350.9524.986.7

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 REPLACEMENTTHROUGHOUT4JB61.868.6967633351099.920.158820.157320.18773RANDOM10.463
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]
0.01-0.010.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.393
r_dihedral_angle_4_deg17.907
r_dihedral_angle_3_deg12.282
r_dihedral_angle_1_deg6.248
r_long_range_B_refined4.907
r_long_range_B_other4.88
r_scangle_other4.026
r_scbond_it2.92
r_scbond_other2.92
r_mcangle_it2.243
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.393
r_dihedral_angle_4_deg17.907
r_dihedral_angle_3_deg12.282
r_dihedral_angle_1_deg6.248
r_long_range_B_refined4.907
r_long_range_B_other4.88
r_scangle_other4.026
r_scbond_it2.92
r_scbond_other2.92
r_mcangle_it2.243
r_mcangle_other2.243
r_mcbond_it1.495
r_angle_refined_deg1.492
r_mcbond_other1.49
r_angle_other_deg1.211
r_chiral_restr0.096
r_bond_refined_d0.011
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_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6074
Nucleic Acid Atoms
Solvent Atoms432
Heterogen Atoms115

Software

Software
Software NamePurpose
REFMACrefinement
xia2data reduction
XSCALEdata scaling