3GNT

Crystal Structure of the Staphylococcus aureus Enoyl-Acyl Carrier Protein Reductase (FabI) in apo form (two molecules in AU)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2PD3 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP829515% PEG 400, 0.1M Tris pH 8.0, 4% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
2.3547.72

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 115.099α = 90
b = 74.462β = 119.35
c = 70.609γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 270mirrors2008-05-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPAL/PLS BEAMLINE 6C11.000PAL/PLS6C1

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
12.7550960.090.1712.74.211436108862236
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)
12.752.85470.180.172.42.1635

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 (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2PD32.7534.96114361088654884.040.2440.243290.241570.27823RANDOM36.972
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]
0.120.03-0.140.05
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg45.602
r_dihedral_angle_3_deg29.959
r_dihedral_angle_4_deg27.305
r_dihedral_angle_1_deg22.748
r_scangle_it7.129
r_scbond_it5.057
r_angle_refined_deg4.26
r_mcangle_it3.073
r_mcbond_it2.224
r_chiral_restr0.736
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg45.602
r_dihedral_angle_3_deg29.959
r_dihedral_angle_4_deg27.305
r_dihedral_angle_1_deg22.748
r_scangle_it7.129
r_scbond_it5.057
r_angle_refined_deg4.26
r_mcangle_it3.073
r_mcbond_it2.224
r_chiral_restr0.736
r_symmetry_vdw_refined0.464
r_nbd_refined0.435
r_nbtor_refined0.398
r_xyhbond_nbd_refined0.297
r_bond_refined_d0.046
r_gen_planes_refined0.016
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3157
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software NamePurpose
HKL-2000data collection
MOLREPphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling