X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3PF7pdb entry 3PF7

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.629813% PEG 4000 0.1M sodium acetate, pH 4.6 0.1M Li2SO4 18% glycerol 5 mM benzoyl-CoA 0.1 mg/ml BoxA 0.1 M KCl 10 mM Pipes, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.5251.18

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 209.66α = 90
b = 76.77β = 109.43
c = 147.83γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELPSI PILATUS 6M2010-07-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SA0.9999SLSX10SA

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
12.543.7990.1310.1138.567710776352
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.52.696.3

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 3PF72.543.772478382499.030.207350.20590.23498RANDOM46.457
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]
-1.080.151.73-0.55
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.377
r_dihedral_angle_4_deg21.373
r_dihedral_angle_3_deg14.752
r_dihedral_angle_1_deg5.637
r_scangle_it3.307
r_scbond_it2.209
r_angle_refined_deg1.317
r_mcangle_it1.165
r_angle_other_deg0.94
r_mcbond_it0.571
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.377
r_dihedral_angle_4_deg21.373
r_dihedral_angle_3_deg14.752
r_dihedral_angle_1_deg5.637
r_scangle_it3.307
r_scbond_it2.209
r_angle_refined_deg1.317
r_mcangle_it1.165
r_angle_other_deg0.94
r_mcbond_it0.571
r_mcbond_other0.103
r_chiral_restr0.072
r_bond_refined_d0.015
r_gen_planes_refined0.006
r_gen_planes_other0.003
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms15298
Nucleic Acid Atoms
Solvent Atoms274
Heterogen Atoms36

Software

Software
Software NamePurpose
PHASERphasing
REFMACrefinement
XDSdata reduction
XDSdata scaling