X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6B5X 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1BATCH MODE300Ammonium Phosphate
Crystal Properties
Matthews coefficientSolvent content
3.7867.46

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 80.91α = 90
b = 99.53β = 108.44
c = 112.5γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray300PIXELAGIPD2020-03-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1FREE ELECTRON LASEREUROPEAN XFEL BEAMLINE SPB/SFX1.1European XFELSPB/SFX

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
12.727.571000.974.2746345344
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)
12.72.720.21

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 REPLACEMENTTHROUGHOUT6B5X2.727.4736435189082.140.21870.21480.2925RANDOM40.902
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]
0.13-0.31-0.630.58
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.65
r_dihedral_angle_4_deg22.229
r_dihedral_angle_3_deg19.458
r_dihedral_angle_1_deg8.496
r_angle_refined_deg1.67
r_angle_other_deg1.192
r_chiral_restr0.062
r_bond_refined_d0.007
r_gen_planes_refined0.006
r_bond_other_d0.001
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.65
r_dihedral_angle_4_deg22.229
r_dihedral_angle_3_deg19.458
r_dihedral_angle_1_deg8.496
r_angle_refined_deg1.67
r_angle_other_deg1.192
r_chiral_restr0.062
r_bond_refined_d0.007
r_gen_planes_refined0.006
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7952
Nucleic Acid Atoms
Solvent Atoms198
Heterogen Atoms80

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
PDB_EXTRACTdata extraction
CrystFELdata reduction
MOLREPphasing