X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6Q2C 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.229616%PEG 3350, 2% Tacsimate pH 7.0, 0.1 M sodium citrate pH 5.2
Crystal Properties
Matthews coefficientSolvent content
2.9758.65

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 98.56α = 90
b = 125.58β = 90.04
c = 100.51γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110PIXELDECTRIS PILATUS3 S 6Mmirrors2020-12-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.3.11.1159ALS8.3.1

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
12.65100.7199.90.1312.456.86710610.378.1
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)
12.652.9699.92.980.616.8

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 REPLACEMENTTHROUGHOUT6Q2C2.65100.7167857317899.940.196110.192430.27535RANDOM80.976
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]
-1.96-0.870.431.53
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.169
r_dihedral_angle_3_deg18.279
r_dihedral_angle_4_deg15.456
r_long_range_B_refined10.173
r_long_range_B_other10.173
r_scangle_other7.695
r_mcangle_it7.341
r_mcangle_other7.341
r_dihedral_angle_1_deg6.799
r_scbond_it4.905
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.169
r_dihedral_angle_3_deg18.279
r_dihedral_angle_4_deg15.456
r_long_range_B_refined10.173
r_long_range_B_other10.173
r_scangle_other7.695
r_mcangle_it7.341
r_mcangle_other7.341
r_dihedral_angle_1_deg6.799
r_scbond_it4.905
r_scbond_other4.905
r_mcbond_it4.847
r_mcbond_other4.847
r_angle_refined_deg1.529
r_angle_other_deg0.986
r_chiral_restr0.088
r_bond_refined_d0.011
r_gen_planes_refined0.007
r_bond_other_d0.002
r_gen_planes_other0.002
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 Atoms14261
Nucleic Acid Atoms
Solvent Atoms37
Heterogen Atoms243

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
MOLREPphasing