X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3P0J 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.72980.1 M sodium cacodylate pH 5.7, 22% PEG 4,000, vapor diffusion, sitting drop, temperature 298
Crystal Properties
Matthews coefficientSolvent content
2.6753.99

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 96.18α = 90
b = 96.18β = 90
c = 351.83γ = 120
Symmetry
Space GroupP 65

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELPSI PILATUS 6M2015-07-27MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL12-20.98SSRLBL12-2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)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
12.7583.291000.210.9958.710.347547

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 REPLACEMENTTHROUGHOUT3P0J2.7583.2945156231199.810.191440.188860.24353RANDOM65.26
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]
-0.22-0.11-0.220.71
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.849
r_dihedral_angle_4_deg17.169
r_dihedral_angle_3_deg14.213
r_long_range_B_refined9.338
r_long_range_B_other9.338
r_scangle_other6.308
r_mcangle_it5.81
r_mcangle_other5.809
r_dihedral_angle_1_deg5.666
r_scbond_it3.869
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.849
r_dihedral_angle_4_deg17.169
r_dihedral_angle_3_deg14.213
r_long_range_B_refined9.338
r_long_range_B_other9.338
r_scangle_other6.308
r_mcangle_it5.81
r_mcangle_other5.809
r_dihedral_angle_1_deg5.666
r_scbond_it3.869
r_scbond_other3.868
r_angle_other_deg3.75
r_mcbond_it3.676
r_mcbond_other3.676
r_angle_refined_deg1.438
r_chiral_restr0.083
r_bond_refined_d0.01
r_gen_planes_refined0.005
r_gen_planes_other0.005
r_bond_other_d
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 Atoms12283
Nucleic Acid Atoms
Solvent Atoms353
Heterogen Atoms70

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
HKL-2000data scaling
PHASERphasing