X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP72930.5% (w/v) tryptone, 25 mM sodium HEPES, and 10% (w/v) polyethylene glycol 3,350, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
238.42

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 57.01α = 90
b = 79.77β = 92.73
c = 95.24γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMAR scanner 300 mm plateSi(111)2013-02-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-D1.00395APS21-ID-D

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
12.942.320.09923.77.419692196895
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)
12.92.9899.50.7854.295.9

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 DIFFRACTIONSADTHROUGHOUT2.8642.3218674100599.30.227280.222960.30514RANDOM88.132
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]
3.99-2.680.72-4.43
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.705
r_dihedral_angle_4_deg21.14
r_dihedral_angle_3_deg19.048
r_long_range_B_refined13.465
r_long_range_B_other13.465
r_dihedral_angle_1_deg7.909
r_scangle_other6.678
r_mcangle_it6.574
r_mcangle_other6.573
r_scbond_it4.2
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.705
r_dihedral_angle_4_deg21.14
r_dihedral_angle_3_deg19.048
r_long_range_B_refined13.465
r_long_range_B_other13.465
r_dihedral_angle_1_deg7.909
r_scangle_other6.678
r_mcangle_it6.574
r_mcangle_other6.573
r_scbond_it4.2
r_scbond_other4.199
r_mcbond_it4.12
r_mcbond_other4.12
r_angle_refined_deg1.675
r_angle_other_deg0.891
r_chiral_restr0.085
r_bond_refined_d0.01
r_gen_planes_refined0.008
r_bond_other_d0.003
r_gen_planes_other0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6398
Nucleic Acid Atoms
Solvent Atoms14
Heterogen Atoms143

Software

Software
Software NamePurpose
MD2data collection
PHENIXmodel building
REFMACrefinement
xia2data reduction
XDSdata reduction
pointlessdata scaling
Aimlessdata scaling
PHENIXphasing