X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 7KQP 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP293100 mM CHES pH 9.5, 30% PEG3000
Crystal Properties
Matthews coefficientSolvent content
2.1442.45

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 88.475α = 90
b = 88.475β = 90
c = 39.139γ = 90
Symmetry
Space GroupP 43

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER2 XE 16M2020-07-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I030.97623DiamondI03

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.962.63995.2162.910.8249288
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.91.940.983

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE7KQP1.962.63922971122894.8390.1730.17050.214119.547
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]
-1.106-1.1062.211
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg16.275
r_dihedral_angle_3_deg12.631
r_dihedral_angle_1_deg6.835
r_dihedral_angle_2_deg5.034
r_lrange_it5.022
r_lrange_other5.003
r_scangle_it3.934
r_scangle_other3.933
r_mcangle_other2.606
r_mcangle_it2.604
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg16.275
r_dihedral_angle_3_deg12.631
r_dihedral_angle_1_deg6.835
r_dihedral_angle_2_deg5.034
r_lrange_it5.022
r_lrange_other5.003
r_scangle_it3.934
r_scangle_other3.933
r_mcangle_other2.606
r_mcangle_it2.604
r_scbond_it2.497
r_scbond_other2.496
r_mcbond_it1.794
r_mcbond_other1.794
r_angle_refined_deg1.623
r_angle_other_deg0.479
r_nbd_other0.222
r_nbd_refined0.219
r_symmetry_xyhbond_nbd_refined0.215
r_symmetry_nbd_other0.186
r_symmetry_nbd_refined0.183
r_nbtor_refined0.173
r_xyhbond_nbd_refined0.119
r_symmetry_nbtor_other0.077
r_chiral_restr0.07
r_bond_refined_d0.008
r_gen_planes_refined0.008
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2520
Nucleic Acid Atoms
Solvent Atoms138
Heterogen Atoms32

Software

Software
Software NamePurpose
REFMACrefinement
DIALSdata reduction
Aimlessdata scaling
PHASERphasing