X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1EVAPORATION2982.56-3.20 M AS, 100 mM Tris-HCl, 1 mm EDTA, pH 7.4 or 9.0.
Crystal Properties
Matthews coefficientSolvent content
3.0860.01

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 90.354α = 90
b = 90.354β = 90
c = 45.332γ = 120
Symmetry
Space GroupP 6

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 200K2017-11-22MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007 HF1.54178

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.7645.3399.8936.217.521127
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)
11.761.7999.10.1747.48

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 REPLACEMENTTHROUGHOUT5ile1.7645.332015198799.890.137430.135790.17188RANDOM13.58
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]
0.070.030.07-0.22
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.499
r_dihedral_angle_4_deg23.812
r_dihedral_angle_3_deg12.895
r_long_range_B_refined7.177
r_long_range_B_other6.192
r_dihedral_angle_1_deg5.149
r_scangle_other4.239
r_scbond_it2.781
r_scbond_other2.781
r_angle_refined_deg1.946
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.499
r_dihedral_angle_4_deg23.812
r_dihedral_angle_3_deg12.895
r_long_range_B_refined7.177
r_long_range_B_other6.192
r_dihedral_angle_1_deg5.149
r_scangle_other4.239
r_scbond_it2.781
r_scbond_other2.781
r_angle_refined_deg1.946
r_mcangle_it1.532
r_mcangle_other1.532
r_angle_other_deg1.2
r_mcbond_it1.08
r_mcbond_other1.057
r_chiral_restr0.099
r_bond_refined_d0.018
r_gen_planes_refined0.012
r_gen_planes_other0.008
r_bond_other_d0.001
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 Atoms1217
Nucleic Acid Atoms
Solvent Atoms319
Heterogen Atoms64

Software

Software
Software NamePurpose
REFMACrefinement
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing