X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3ZR1 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP293.150.1 M Sodium acetate, pH 3.5, 0.2 M Li2SO4, 0.5 % w/v n-octyl-beta-D-glucoside and 34 % PEG6000
Crystal Properties
Matthews coefficientSolvent content
2.1943.75

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 56.459α = 90
b = 67.353β = 90.28
c = 93.256γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2014-12-07MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.10.91841BESSY14.1

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
1248.499.60.0999.53.847302
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)
122.0599.80.3453.73.93496

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 REPLACEMENTTHROUGHOUT3ZR1248.444917236499.60.192030.189780.2338RANDOM18.242
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]
-0.38-1.44-0.861.26
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.786
r_dihedral_angle_4_deg15.929
r_dihedral_angle_3_deg14.654
r_dihedral_angle_1_deg6.344
r_long_range_B_refined5.009
r_long_range_B_other5.009
r_scangle_other2.491
r_mcangle_it1.8
r_mcangle_other1.8
r_scbond_it1.522
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.786
r_dihedral_angle_4_deg15.929
r_dihedral_angle_3_deg14.654
r_dihedral_angle_1_deg6.344
r_long_range_B_refined5.009
r_long_range_B_other5.009
r_scangle_other2.491
r_mcangle_it1.8
r_mcangle_other1.8
r_scbond_it1.522
r_scbond_other1.522
r_angle_refined_deg1.316
r_mcbond_it1.082
r_mcbond_other1.078
r_angle_other_deg0.719
r_chiral_restr0.081
r_bond_refined_d0.009
r_gen_planes_refined0.006
r_bond_other_d0.001
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 Atoms5185
Nucleic Acid Atoms
Solvent Atoms398
Heterogen Atoms83

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing