X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6I5Q 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7291PEG 2000, sodium succinate, HEPES
Crystal Properties
Matthews coefficientSolvent content
3.1661.1

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 111.148α = 90
b = 111.148β = 90
c = 302.38γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2013-05-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I030.97625DiamondI03

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
13151.191000.0990.0340.99916.31044411
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)
133.111001.8730.6520.531.310.1

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 REPLACEMENTTHROUGHOUT6I5Q310142222212399.960.207210.203140.28932RANDOM76.094
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]
-1.93-0.97-1.936.27
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.883
r_dihedral_angle_3_deg21.001
r_dihedral_angle_4_deg16.152
r_long_range_B_other14.517
r_long_range_B_refined14.516
r_scangle_other11.591
r_mcangle_it11.541
r_mcangle_other11.541
r_dihedral_angle_1_deg7.986
r_mcbond_it7.946
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.883
r_dihedral_angle_3_deg21.001
r_dihedral_angle_4_deg16.152
r_long_range_B_other14.517
r_long_range_B_refined14.516
r_scangle_other11.591
r_mcangle_it11.541
r_mcangle_other11.541
r_dihedral_angle_1_deg7.986
r_mcbond_it7.946
r_mcbond_other7.944
r_scbond_it7.732
r_scbond_other7.732
r_angle_refined_deg1.725
r_angle_other_deg1.279
r_chiral_restr0.072
r_bond_refined_d0.008
r_gen_planes_refined0.007
r_gen_planes_other0.002
r_bond_other_d0.001
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 Atoms10112
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms79

Software

Software
Software NamePurpose
REFMACrefinement
xia2data reduction
Aimlessdata scaling
REFMACphasing