X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP293.1523% PEG 3350, 0.4 M sodium thiocyanate
Crystal Properties
Matthews coefficientSolvent content
2.3848.42

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 81.285α = 90
b = 128.296β = 109.38
c = 104.019γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 S 6M2017-12-04MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPHOTON FACTORY BEAMLINE BL-5A1.0000Photon FactoryBL-5A

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
11.646.13990.0670.0410.9899.93.826120911.88
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.61.63980.4850.3560.8441.9

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 DIFFRACTIONSADTHROUGHOUT1.646.182482191295098.920.178670.176960.21121RANDOM17.379
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]
-0.880.271.58-0.71
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg14.231
r_dihedral_angle_2_deg8.892
r_dihedral_angle_1_deg7.779
r_long_range_B_refined4.617
r_long_range_B_other4.617
r_scangle_other3.518
r_mcangle_other2.633
r_mcangle_it2.632
r_scbond_it2.589
r_scbond_other2.589
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg14.231
r_dihedral_angle_2_deg8.892
r_dihedral_angle_1_deg7.779
r_long_range_B_refined4.617
r_long_range_B_other4.617
r_scangle_other3.518
r_mcangle_other2.633
r_mcangle_it2.632
r_scbond_it2.589
r_scbond_other2.589
r_mcbond_it2.093
r_mcbond_other2.091
r_angle_refined_deg1.906
r_angle_other_deg0.685
r_chiral_restr0.101
r_bond_refined_d0.015
r_gen_planes_refined0.014
r_bond_other_d0.001
r_gen_planes_other0.001
r_dihedral_angle_4_deg
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 Atoms14836
Nucleic Acid Atoms
Solvent Atoms1760
Heterogen Atoms108

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHENIXphasing