X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP929833% PEG 300, 0.1 M NaCl, 0.05 M bicine
Crystal Properties
Matthews coefficientSolvent content
2.7154.5

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 81.36α = 90
b = 81.36β = 90
c = 198.5γ = 120
Symmetry
Space GroupP 63

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray298PIXELDECTRIS PILATUS 6M-F2017-05-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04-10.920DiamondI04-1

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
12.0257.521000.912.311.548646
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)
12.021000.61.311.4

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 REPLACEMENTTHROUGHOUT6EHB2.0257.5246172241999.970.195330.19260.24761RANDOM39.774
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]
-1.74-0.87-1.745.64
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.655
r_dihedral_angle_4_deg16.4
r_dihedral_angle_3_deg14.124
r_long_range_B_refined7.164
r_long_range_B_other7.164
r_dihedral_angle_1_deg6.967
r_scangle_other5.392
r_mcangle_it4.209
r_mcangle_other4.209
r_scbond_it3.636
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.655
r_dihedral_angle_4_deg16.4
r_dihedral_angle_3_deg14.124
r_long_range_B_refined7.164
r_long_range_B_other7.164
r_dihedral_angle_1_deg6.967
r_scangle_other5.392
r_mcangle_it4.209
r_mcangle_other4.209
r_scbond_it3.636
r_scbond_other3.636
r_mcbond_it3.011
r_mcbond_other3.009
r_angle_refined_deg1.652
r_angle_other_deg0.943
r_chiral_restr0.109
r_bond_refined_d0.017
r_gen_planes_refined0.007
r_bond_other_d0.002
r_gen_planes_other0.001
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 Atoms4714
Nucleic Acid Atoms
Solvent Atoms256
Heterogen Atoms97

Software

Software
Software NamePurpose
REFMACrefinement
xia2data reduction
xia2data scaling
MOLREPphasing