X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3PO6 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.8291.1550 mM Tris, 1.6 M Natrium Acetate
Crystal Properties
Matthews coefficientSolvent content
2.0539.86

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 41.919α = 90
b = 41.012β = 104.64
c = 71.144γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2014-12-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.10.91841BESSY14.1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
11.240.5695.40.0410.0470.99916.783.85270102-316.204
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.21.2775.70.4470.5440.7952.162.84

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 DIFFRACTIONFOURIER SYNTHESISTHROUGHOUT3PO61.240.5669097100395.440.1410.14060.1681RANDOM17.079
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]
0.70.03-1.130.37
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.618
r_sphericity_free23.729
r_dihedral_angle_4_deg19.122
r_dihedral_angle_3_deg12.782
r_sphericity_bonded9.014
r_rigid_bond_restr7.202
r_dihedral_angle_1_deg7.051
r_angle_refined_deg1.858
r_angle_other_deg1.319
r_chiral_restr0.105
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.618
r_sphericity_free23.729
r_dihedral_angle_4_deg19.122
r_dihedral_angle_3_deg12.782
r_sphericity_bonded9.014
r_rigid_bond_restr7.202
r_dihedral_angle_1_deg7.051
r_angle_refined_deg1.858
r_angle_other_deg1.319
r_chiral_restr0.105
r_bond_refined_d0.014
r_gen_planes_refined0.012
r_gen_planes_other0.005
r_bond_other_d0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2027
Nucleic Acid Atoms
Solvent Atoms272
Heterogen Atoms24

Software

Software
Software NamePurpose
XSCALEdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction