X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1O6Y 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP82914.3 M NaCl, 0.1 M Hepes-Na pH 8.0
Crystal Properties
Matthews coefficientSolvent content
3.4363.97

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 102.31α = 90
b = 150.18β = 96.98
c = 96.54γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2102008-02-09MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-20.933ESRFID14-2

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
12.943.699.60.1078.33.631961
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)
12.93.0699.11.1971.13.5

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 REPLACEMENTTHROUGHOUT1o6y2.943.5630353160699.570.220330.219120.24302RANDOM91.212
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]
-3.571.5-0.53.6
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.047
r_dihedral_angle_3_deg16.555
r_dihedral_angle_4_deg12.339
r_long_range_B_refined7.878
r_long_range_B_other7.878
r_scangle_other6.291
r_mcangle_it5.214
r_mcangle_other5.214
r_scbond_it4.077
r_scbond_other4.076
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.047
r_dihedral_angle_3_deg16.555
r_dihedral_angle_4_deg12.339
r_long_range_B_refined7.878
r_long_range_B_other7.878
r_scangle_other6.291
r_mcangle_it5.214
r_mcangle_other5.214
r_scbond_it4.077
r_scbond_other4.076
r_mcbond_it3.377
r_mcbond_other3.369
r_dihedral_angle_1_deg3.188
r_angle_refined_deg1.289
r_angle_other_deg1.144
r_chiral_restr0.063
r_bond_refined_d0.01
r_gen_planes_refined0.005
r_bond_other_d0.004
r_gen_planes_other0.004
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 Atoms6017
Nucleic Acid Atoms
Solvent Atoms10
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing