X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4FNK 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2930.2 M potassium nitrate and 20% PEG 3350
Crystal Properties
Matthews coefficientSolvent content
2.8456.63

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 205.554α = 90
b = 129.392β = 102.66
c = 72.894γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 6M2016-10-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 23-ID-D1.0331APS23-ID-D

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
12.4550980.10.04118.26.366821
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.452.5383.30.520.260.811.64.4

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 REPLACEMENTTHROUGHOUT4FNK2.455063464334897.890.199130.197990.21956RANDOM61.35
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]
2.032.88-2.03-1.17
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.96
r_dihedral_angle_4_deg17.428
r_dihedral_angle_3_deg13.982
r_dihedral_angle_1_deg5.94
r_long_range_B_refined5.432
r_long_range_B_other5.424
r_scangle_other2.755
r_mcangle_it1.792
r_mcangle_other1.792
r_scbond_it1.673
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.96
r_dihedral_angle_4_deg17.428
r_dihedral_angle_3_deg13.982
r_dihedral_angle_1_deg5.94
r_long_range_B_refined5.432
r_long_range_B_other5.424
r_scangle_other2.755
r_mcangle_it1.792
r_mcangle_other1.792
r_scbond_it1.673
r_scbond_other1.673
r_angle_refined_deg1.433
r_mcbond_it1.081
r_mcbond_other1.081
r_angle_other_deg0.917
r_chiral_restr0.08
r_bond_refined_d0.009
r_gen_planes_refined0.005
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 Atoms11483
Nucleic Acid Atoms
Solvent Atoms274
Heterogen Atoms321

Software

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