X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3II0 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP29425% w/v PEG 3,350, 0.1 M HEPES pH 7.5
Crystal Properties
Matthews coefficientSolvent content
2.9458.13

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 257.7α = 90
b = 148.626β = 89.98
c = 83.183γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCD2017-03-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-D0.9787APS21-ID-D

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
135099.770.099.4244281
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)
133.080.61

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 REPLACEMENTTHROUGHOUT3II0348.759473304799.840.185380.184020.21144RANDOM70
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]
-0.380.190.43-0.05
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.806
r_long_range_B_refined20.407
r_long_range_B_other20.407
r_dihedral_angle_3_deg18.584
r_dihedral_angle_4_deg18.175
r_mcangle_it12.314
r_mcangle_other12.313
r_scangle_other10.366
r_mcbond_it8.01
r_mcbond_other8.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.806
r_long_range_B_refined20.407
r_long_range_B_other20.407
r_dihedral_angle_3_deg18.584
r_dihedral_angle_4_deg18.175
r_mcangle_it12.314
r_mcangle_other12.313
r_scangle_other10.366
r_mcbond_it8.01
r_mcbond_other8.01
r_dihedral_angle_1_deg7.953
r_scbond_it6.831
r_scbond_other6.83
r_angle_refined_deg1.465
r_angle_other_deg0.888
r_chiral_restr0.069
r_bond_refined_d0.01
r_gen_planes_refined0.008
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 Atoms18277
Nucleic Acid Atoms
Solvent Atoms9
Heterogen Atoms132

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing