X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4I4W 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2940.1 M Tris pH 8.0, 15 % Glycerol, 20 % PEG 4000
Crystal Properties
Matthews coefficientSolvent content
2.5952.55

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 56.08α = 90
b = 57.63β = 89.81
c = 79.93γ = 63.84
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 6M2014-01-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I020.9795DiamondI02

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
12.1243.3997.40.0920.0840.9856.5249667
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)
12.122.1896.70.4270.3920.7682.32.13636

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 REPLACEMENTTHROUGHOUT4I4W2.1243.3947152251497.450.17360.17160.211RANDOM34.769
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]
2.70.840.38-0.740.09-0.77
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.21
r_dihedral_angle_4_deg21.478
r_dihedral_angle_3_deg16.531
r_dihedral_angle_1_deg6.87
r_angle_refined_deg2.067
r_mcangle_it2.056
r_angle_other_deg1.347
r_mcbond_it1.282
r_mcbond_other1.278
r_chiral_restr0.122
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.21
r_dihedral_angle_4_deg21.478
r_dihedral_angle_3_deg16.531
r_dihedral_angle_1_deg6.87
r_angle_refined_deg2.067
r_mcangle_it2.056
r_angle_other_deg1.347
r_mcbond_it1.282
r_mcbond_other1.278
r_chiral_restr0.122
r_bond_refined_d0.021
r_gen_planes_refined0.011
r_bond_other_d0.006
r_gen_planes_other0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6308
Nucleic Acid Atoms
Solvent Atoms237
Heterogen Atoms65

Software

Software
Software NamePurpose
Aimlessdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction