X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4WR3 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP72910.1 M HEPES pH 7.0, 1.6 M ammonium sulfate
Crystal Properties
Matthews coefficientSolvent content
3.362.71

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 147.978α = 90
b = 147.978β = 90
c = 163.578γ = 120
Symmetry
Space GroupP 6

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110IMAGE PLATEMAR scanner 345 mm plate2014-11-28MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007 HF1.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)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
12.2519.9199.70.0880.99210.711.495615
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.252.29970.4320.617210.2

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 REPLACEMENTTHROUGHOUT4WR32.2519.990731492499.710.169140.167310.20217RANDOM21.717
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]
-0.27-0.270.55
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.104
r_dihedral_angle_4_deg16.293
r_dihedral_angle_3_deg15.011
r_dihedral_angle_1_deg7.394
r_long_range_B_refined3.87
r_long_range_B_other3.843
r_scangle_other2.803
r_mcangle_it2.505
r_mcangle_other2.504
r_scbond_it2.089
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.104
r_dihedral_angle_4_deg16.293
r_dihedral_angle_3_deg15.011
r_dihedral_angle_1_deg7.394
r_long_range_B_refined3.87
r_long_range_B_other3.843
r_scangle_other2.803
r_mcangle_it2.505
r_mcangle_other2.504
r_scbond_it2.089
r_scbond_other2.071
r_mcbond_it1.894
r_mcbond_other1.894
r_angle_refined_deg1.142
r_angle_other_deg0.645
r_chiral_restr0.074
r_gen_planes_refined0.012
r_bond_refined_d0.008
r_gen_planes_other0.001
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 Atoms10758
Nucleic Acid Atoms
Solvent Atoms236
Heterogen Atoms106

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing