X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5ETK 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.55281PROTEIN 6.6 MG/ML 1 MM AMPCPP, 1 MM INHIBITOR, 2 MM MAGNESIUM CHLORIDE, 22% w/v PEG4000, 0.1 M SODIUM HEPES, 0.208 M CALCIUM CHLORIDE
Crystal Properties
Matthews coefficientSolvent content
2.0840.89

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.447α = 90
b = 36.179β = 90.32
c = 121.33γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2015-04-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAUSTRALIAN SYNCHROTRON BEAMLINE MX20.9537Australian SynchrotronMX2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)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
11.8245.8199.60.115117.254352
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.821.8695.70.712.67

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 REPLACEMENTTHROUGHOUT5ETK1.8245.8151638270999.560.204230.202360.2407RANDOM14.358
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]
-0.14-1.1-0.420.57
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.426
r_dihedral_angle_4_deg20.377
r_dihedral_angle_3_deg11.872
r_long_range_B_other7.854
r_long_range_B_refined7.853
r_dihedral_angle_1_deg6.858
r_scangle_other5.898
r_scbond_it4.281
r_scbond_other4.28
r_mcangle_it3.615
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.426
r_dihedral_angle_4_deg20.377
r_dihedral_angle_3_deg11.872
r_long_range_B_other7.854
r_long_range_B_refined7.853
r_dihedral_angle_1_deg6.858
r_scangle_other5.898
r_scbond_it4.281
r_scbond_other4.28
r_mcangle_it3.615
r_mcangle_other3.615
r_angle_other_deg3.561
r_mcbond_it2.578
r_mcbond_other2.576
r_angle_refined_deg1.791
r_chiral_restr0.104
r_bond_refined_d0.014
r_gen_planes_other0.014
r_gen_planes_refined0.009
r_bond_other_d
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4986
Nucleic Acid Atoms
Solvent Atoms529
Heterogen Atoms219

Software

Software
Software NamePurpose
REFMACrefinement
Cootmodel building
Aimlessdata scaling
MOLREPphasing
XDSdata reduction