X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.5293.150.1 M BIS-TRIS, 2.0 M ammonium sulfate, incubated in 25% glycerol with a drop of benzaldehyde and 2 M potassium cyanide
Crystal Properties
Matthews coefficientSolvent content
3.4964.8

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 123.16α = 90
b = 123.16β = 90
c = 130.14γ = 120
Symmetry
Space GroupP 63

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU2017-08-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU1.5418

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
12.0161.5899.90.0697.9374529
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)
12.012.050.069

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT6KFE2.0149.39674513363199.8930.2080.20610.234939.04
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]
0.3230.1620.323-1.049
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg16.57
r_dihedral_angle_3_deg14.696
r_dihedral_angle_2_deg10.637
r_dihedral_angle_1_deg7.923
r_lrange_other7.827
r_lrange_it7.824
r_scangle_it6.165
r_scangle_other5.907
r_mcangle_it4.807
r_mcangle_other4.806
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg16.57
r_dihedral_angle_3_deg14.696
r_dihedral_angle_2_deg10.637
r_dihedral_angle_1_deg7.923
r_lrange_other7.827
r_lrange_it7.824
r_scangle_it6.165
r_scangle_other5.907
r_mcangle_it4.807
r_mcangle_other4.806
r_scbond_it4.63
r_scbond_other4.25
r_mcbond_it3.503
r_mcbond_other3.502
r_angle_refined_deg1.541
r_angle_other_deg0.514
r_nbd_refined0.219
r_xyhbond_nbd_refined0.219
r_symmetry_xyhbond_nbd_other0.216
r_symmetry_nbd_other0.198
r_nbtor_refined0.18
r_symmetry_nbd_refined0.149
r_nbd_other0.148
r_symmetry_xyhbond_nbd_refined0.132
r_symmetry_nbtor_other0.084
r_chiral_restr0.069
r_bond_refined_d0.008
r_gen_planes_refined0.008
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5072
Nucleic Acid Atoms
Solvent Atoms339
Heterogen Atoms125

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
Cootmodel building