X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP293.4200 mM magnesium choloride, 10 mM zinc chloride, 26% (w/v) Poly(acrylic acid sodium salt) 5100 in 0.1 M HEPES (pH 7.5)
Crystal Properties
Matthews coefficientSolvent content
2.5351.34

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 85.529α = 90
b = 85.529β = 90
c = 93.611γ = 120
Symmetry
Space GroupP 31

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2012-11-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSPRING-8 BEAMLINE BL38B11.3SPring-8BL38B1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.4610.9999.825.145.7755667

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 DIFFRACTIONSADTHROUGHOUT2.4610.9926299146199.840.168140.16730.18335RANDOM53.694
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]
-5.63-5.6311.25
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.85
r_dihedral_angle_4_deg22.483
r_dihedral_angle_3_deg14.17
r_dihedral_angle_1_deg5.372
r_long_range_B_refined4.078
r_long_range_B_other4.071
r_mcangle_it2.625
r_mcangle_other2.625
r_scangle_other2.25
r_mcbond_it1.518
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.85
r_dihedral_angle_4_deg22.483
r_dihedral_angle_3_deg14.17
r_dihedral_angle_1_deg5.372
r_long_range_B_refined4.078
r_long_range_B_other4.071
r_mcangle_it2.625
r_mcangle_other2.625
r_scangle_other2.25
r_mcbond_it1.518
r_mcbond_other1.517
r_scbond_it1.283
r_scbond_other1.283
r_angle_refined_deg0.959
r_angle_other_deg0.861
r_chiral_restr0.058
r_bond_refined_d0.005
r_gen_planes_refined0.004
r_bond_other_d0.002
r_gen_planes_other0.002
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 Atoms5243
Nucleic Acid Atoms
Solvent Atoms67
Heterogen Atoms1

Software

Software
Software NamePurpose
REFMACrefinement
PHENIXrefinement
PHENIXmodel building
Cootmodel building
PHENIXphasing