X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7293Precipitant 5 mM NiCl2, 0.1 M HEPES pH 7.0 20% w/v PEG 3350 Protein sample: 20 mM Bis-Tris buffer, pH 7.0 Mixed 1:1
Crystal Properties
Matthews coefficientSolvent content
2.3146.86

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 56.17α = 90
b = 71.67β = 90
c = 104.22γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 130 mm2013-10-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONMAX II BEAMLINE I911-30.9MAX III911-3

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
11.7234.7499.90.1329.25.287266
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)
11.721.8299.60.444.6

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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1.7234.7482833436799.880.149120.147830.17309RANDOM11.212
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]
-0.060.030.02
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.51
r_dihedral_angle_4_deg17.76
r_dihedral_angle_3_deg11.344
r_dihedral_angle_1_deg6.338
r_long_range_B_refined4.008
r_long_range_B_other4.008
r_angle_refined_deg1.356
r_mcangle_other1.153
r_mcangle_it1.152
r_scangle_other1.082
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.51
r_dihedral_angle_4_deg17.76
r_dihedral_angle_3_deg11.344
r_dihedral_angle_1_deg6.338
r_long_range_B_refined4.008
r_long_range_B_other4.008
r_angle_refined_deg1.356
r_mcangle_other1.153
r_mcangle_it1.152
r_scangle_other1.082
r_angle_other_deg0.924
r_scbond_it0.663
r_scbond_other0.661
r_mcbond_it0.643
r_mcbond_other0.639
r_chiral_restr0.08
r_bond_refined_d0.007
r_gen_planes_refined0.005
r_bond_other_d0.002
r_gen_planes_other0.001
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 Atoms6344
Nucleic Acid Atoms
Solvent Atoms931
Heterogen Atoms135

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing