X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2FYT 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.52910.1 M TRIS hydrochloride pH 8.5, 2.0 M Ammonium sulfate
Crystal Properties
Matthews coefficientSolvent content
2.6653.77

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 95.808α = 90
b = 99.863β = 90
c = 170.314γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER2 X 16M2022-04-22MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 24-ID-E0.97918APS24-ID-E

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)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
12.025099.80.07519.46.353430
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.022.051000.9750.6931.96.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 REPLACEMENTTHROUGHOUT2.0247.9652232115399.70.195620.194850.23172RANDOM34.889
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]
1.2-0.59-0.61
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.025
r_dihedral_angle_3_deg14.435
r_dihedral_angle_4_deg14.427
r_dihedral_angle_1_deg7.108
r_long_range_B_refined5.854
r_long_range_B_other5.851
r_scangle_other4.477
r_mcangle_it3.162
r_mcangle_other3.162
r_scbond_it2.961
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.025
r_dihedral_angle_3_deg14.435
r_dihedral_angle_4_deg14.427
r_dihedral_angle_1_deg7.108
r_long_range_B_refined5.854
r_long_range_B_other5.851
r_scangle_other4.477
r_mcangle_it3.162
r_mcangle_other3.162
r_scbond_it2.961
r_scbond_other2.951
r_mcbond_it2.302
r_mcbond_other2.3
r_angle_refined_deg1.422
r_angle_other_deg1.279
r_chiral_restr0.063
r_bond_refined_d0.007
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 Atoms4840
Nucleic Acid Atoms
Solvent Atoms163
Heterogen Atoms74

Software

Software
Software NamePurpose
HKL-3000data scaling
PHASERphasing
REFMACrefinement