X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP72910.8 M Sodium succinate
Crystal Properties
Matthews coefficientSolvent content
2.0941.18

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 76.872α = 90
b = 65.76β = 104.27
c = 102.66γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2018-10-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPETRA III, DESY BEAMLINE P111.0332PETRA III, DESYP11

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Rrim 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
12.549.3599.440.04129.356.834461
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rrim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.52.698.530.520.966.9

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 REPLACEMENTTHROUGHOUT7ALZ2.549.3532460200099.780.234340.231740.27735RANDOM35.57
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]
0.03-0.290.89-0.68
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.651
r_dihedral_angle_4_deg15.914
r_dihedral_angle_3_deg13.14
r_dihedral_angle_1_deg6.028
r_long_range_B_refined5.04
r_long_range_B_other5.035
r_mcangle_it2.715
r_mcangle_other2.715
r_scangle_other2.338
r_mcbond_it1.587
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.651
r_dihedral_angle_4_deg15.914
r_dihedral_angle_3_deg13.14
r_dihedral_angle_1_deg6.028
r_long_range_B_refined5.04
r_long_range_B_other5.035
r_mcangle_it2.715
r_mcangle_other2.715
r_scangle_other2.338
r_mcbond_it1.587
r_mcbond_other1.587
r_scbond_it1.373
r_scbond_other1.372
r_angle_refined_deg1.154
r_angle_other_deg1.043
r_chiral_restr0.116
r_bond_refined_d0.006
r_gen_planes_refined0.003
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms8497
Nucleic Acid Atoms
Solvent Atoms57
Heterogen Atoms

Software

Software
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing