X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6R79 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2980.1 M Bis-Tris pH 5.5, 0.2 M Ammonium sulfate, 25% PEG 3350
Crystal Properties
Matthews coefficientSolvent content
2.7254.78

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 48.207α = 90
b = 90.925β = 90
c = 120.811γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 2M-F2019-02-11MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06DA1SLSX06DA

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
11.945.599.240.9911.656.64230737.72
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)
11.91.960.75

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 REPLACEMENTTHROUGHOUT6R791.945.540169213899.250.19090.18890.2276RANDOM45.296
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]
3.93-1.42-2.5
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.049
r_dihedral_angle_4_deg22.406
r_dihedral_angle_3_deg15.779
r_dihedral_angle_1_deg6.758
r_mcangle_it4.846
r_mcbond_it3.874
r_mcbond_other3.865
r_angle_other_deg2.28
r_angle_refined_deg1.464
r_chiral_restr0.071
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.049
r_dihedral_angle_4_deg22.406
r_dihedral_angle_3_deg15.779
r_dihedral_angle_1_deg6.758
r_mcangle_it4.846
r_mcbond_it3.874
r_mcbond_other3.865
r_angle_other_deg2.28
r_angle_refined_deg1.464
r_chiral_restr0.071
r_bond_other_d0.035
r_bond_refined_d0.01
r_gen_planes_other0.01
r_gen_planes_refined0.009
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3438
Nucleic Acid Atoms
Solvent Atoms202
Heterogen Atoms136

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing
PDB_EXTRACTdata extraction