X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1Z57 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP277.1530% 1,2-propanediol, 10% glycerol and 50 mM Na/K phosphate pH 7.2
Crystal Properties
Matthews coefficientSolvent content
2.4549.86

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 56.471α = 90
b = 116.021β = 99.28
c = 90.108γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 6M2014-08-18MSINGLE 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)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
12.5235.4799.80.1197.64.83870051.9
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)
12.522.6699.80.82924.5

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 REPLACEMENTTHROUGHOUT1Z572.5235.4736746189799.730.201340.19910.24366RANDOM71.461
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]
-2.590.323.76-1.21
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.843
r_dihedral_angle_4_deg23.127
r_dihedral_angle_3_deg13.879
r_long_range_B_other6.974
r_long_range_B_refined6.973
r_dihedral_angle_1_deg6
r_scangle_other4.992
r_mcangle_it4.109
r_mcangle_other4.107
r_scbond_it3.186
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.843
r_dihedral_angle_4_deg23.127
r_dihedral_angle_3_deg13.879
r_long_range_B_other6.974
r_long_range_B_refined6.973
r_dihedral_angle_1_deg6
r_scangle_other4.992
r_mcangle_it4.109
r_mcangle_other4.107
r_scbond_it3.186
r_scbond_other3.185
r_mcbond_it2.638
r_mcbond_other2.637
r_angle_refined_deg1.217
r_angle_other_deg0.848
r_chiral_restr0.07
r_bond_refined_d0.011
r_gen_planes_refined0.007
r_bond_other_d0.005
r_gen_planes_other0.005
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 Atoms7927
Nucleic Acid Atoms
Solvent Atoms95
Heterogen Atoms60

Software

Software
Software NamePurpose
REFMACrefinement
iMOSFLMdata reduction
SCALAdata scaling
PHASERphasing