X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6PG3 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2810.179 M ammonium sulfate, 0.1 M bis-tris chloride (pH 5.62), 28.6 %w/v PEG3350
Crystal Properties
Matthews coefficientSolvent content
2.1643.11

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.118α = 104.7
b = 75.831β = 96.41
c = 79.239γ = 105.23
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2016-07-09MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAUSTRALIAN SYNCHROTRON BEAMLINE MX20.95370Australian SynchrotronMX2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.6746.7196.40.99911.33.8128452
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.671.792.10.75123.8

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 REPLACEMENTTHROUGHOUT6PG31.6746.71122246620496.410.187820.186830.20678RANDOM19.039
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]
0.29-0.50.12-0.610.210.38
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.384
r_dihedral_angle_4_deg17.752
r_dihedral_angle_3_deg13.255
r_dihedral_angle_1_deg8.086
r_long_range_B_refined4.305
r_long_range_B_other4.305
r_scangle_other2.833
r_angle_other_deg2.345
r_mcangle_other2.006
r_mcangle_it2.005
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.384
r_dihedral_angle_4_deg17.752
r_dihedral_angle_3_deg13.255
r_dihedral_angle_1_deg8.086
r_long_range_B_refined4.305
r_long_range_B_other4.305
r_scangle_other2.833
r_angle_other_deg2.345
r_mcangle_other2.006
r_mcangle_it2.005
r_scbond_it1.789
r_scbond_other1.786
r_angle_refined_deg1.407
r_mcbond_it1.328
r_mcbond_other1.326
r_chiral_restr0.07
r_bond_other_d0.036
r_bond_refined_d0.009
r_gen_planes_other0.009
r_gen_planes_refined0.007
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 Atoms9419
Nucleic Acid Atoms
Solvent Atoms886
Heterogen Atoms73

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing