X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8293.150.1 M imidazole pH 8.0, 15% PEG 8000, 7.5% DMSO and 0.2 M calcium acetate
Crystal Properties
Matthews coefficientSolvent content
3.2662.31

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 120.934α = 90
b = 120.934β = 90
c = 99.851γ = 120
Symmetry
Space GroupP 63 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCD2012-10-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-20.8726ESRFID23-2

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
11.346.3894.20.0714.95.299395
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)
11.31.3871.30.51.92.8

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 REPLACEMENTTHROUGHOUT3EF21.346.3894423497094.250.148230.146420.18277RANDOM13.169
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]
0.230.120.23-0.75
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.513
r_dihedral_angle_4_deg20.221
r_dihedral_angle_3_deg12.071
r_sphericity_bonded10.907
r_dihedral_angle_1_deg7.197
r_rigid_bond_restr5.634
r_long_range_B_refined3.296
r_scangle_other2.949
r_scbond_it2.812
r_scbond_other2.811
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.513
r_dihedral_angle_4_deg20.221
r_dihedral_angle_3_deg12.071
r_sphericity_bonded10.907
r_dihedral_angle_1_deg7.197
r_rigid_bond_restr5.634
r_long_range_B_refined3.296
r_scangle_other2.949
r_scbond_it2.812
r_scbond_other2.811
r_long_range_B_other2.603
r_angle_refined_deg2.278
r_mcangle_it1.78
r_mcangle_other1.78
r_mcbond_it1.556
r_mcbond_other1.543
r_angle_other_deg1.45
r_chiral_restr0.455
r_bond_refined_d0.025
r_gen_planes_refined0.014
r_bond_other_d0.003
r_gen_planes_other0.002
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_sphericity_free
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2277
Nucleic Acid Atoms
Solvent Atoms333
Heterogen Atoms136

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing
Cootmodel building