X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 7B53 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.52940.1M citrate pH 5.5 21% PEG4K 22% 2-propanol
Crystal Properties
Matthews coefficientSolvent content
2.2946.36

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 58.693α = 97.098
b = 58.903β = 91.201
c = 74.011γ = 104.598
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 S 6M2018-07-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04-10.91587DiamondI04-1

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
11.7773.2795.10.9998.21.887747
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)
11.771.870.45

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-VALUE7B531.83873.2779052405195.5620.2080.20570.255938.445
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]
-0.0351.49-0.7010.9170.832-1.89
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.859
r_dihedral_angle_4_deg14.953
r_dihedral_angle_3_deg13.499
r_lrange_it7.186
r_lrange_other7.174
r_dihedral_angle_1_deg6.776
r_scangle_it5.677
r_scangle_other5.676
r_mcangle_it4.268
r_mcangle_other4.267
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.859
r_dihedral_angle_4_deg14.953
r_dihedral_angle_3_deg13.499
r_lrange_it7.186
r_lrange_other7.174
r_dihedral_angle_1_deg6.776
r_scangle_it5.677
r_scangle_other5.676
r_mcangle_it4.268
r_mcangle_other4.267
r_scbond_it3.796
r_scbond_other3.785
r_mcbond_it3.093
r_mcbond_other3.093
r_angle_refined_deg1.512
r_angle_other_deg1.328
r_symmetry_nbd_refined0.304
r_symmetry_xyhbond_nbd_refined0.259
r_nbd_other0.233
r_nbd_refined0.204
r_symmetry_nbd_other0.174
r_xyhbond_nbd_refined0.166
r_nbtor_refined0.154
r_symmetry_nbtor_other0.077
r_chiral_restr0.067
r_bond_refined_d0.008
r_gen_planes_refined0.007
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7215
Nucleic Acid Atoms
Solvent Atoms320
Heterogen Atoms72

Software

Software
Software NamePurpose
REFMACrefinement
xia2data reduction
xia2data scaling
PHASERphasing