X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6AJ5 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP72930.1M HEPES, 1.8 M Triammonium citrate, 1 mM ferulenol
Crystal Properties
Matthews coefficientSolvent content
3.0359.38

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 132.984α = 90
b = 132.984β = 90
c = 214.998γ = 120
Symmetry
Space GroupP 63

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX300HE2016-12-11MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSPRING-8 BEAMLINE BL44XU0.90000SPring-8BL44XU

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
13.655096.10.0757.94.324158
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)
13.653.7196.70.7971.744.2

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 REPLACEMENTTHROUGHOUT6AJ53.652021056108992.390.225080.221040.30334RANDOM61.906
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]
-1.01-0.51-1.013.28
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.894
r_dihedral_angle_3_deg19.687
r_dihedral_angle_4_deg14.845
r_dihedral_angle_1_deg8.934
r_long_range_B_refined4.033
r_long_range_B_other4.032
r_mcangle_it1.904
r_mcangle_other1.904
r_angle_refined_deg1.522
r_scangle_other1.373
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.894
r_dihedral_angle_3_deg19.687
r_dihedral_angle_4_deg14.845
r_dihedral_angle_1_deg8.934
r_long_range_B_refined4.033
r_long_range_B_other4.032
r_mcangle_it1.904
r_mcangle_other1.904
r_angle_refined_deg1.522
r_scangle_other1.373
r_mcbond_it1.042
r_mcbond_other1.041
r_angle_other_deg1.03
r_scbond_it0.697
r_scbond_other0.697
r_chiral_restr0.097
r_bond_refined_d0.009
r_gen_planes_refined0.006
r_bond_other_d0.002
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_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms11764
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms276

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing