X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP8291Molecular Dimensions, PACT Pemier Screen, condition D05 (0.1 M MMT [Malic acid, MES, Tris], pH 8.0, 25 % w/v PEG 1500)
Crystal Properties
Matthews coefficientSolvent content
2.1241.99

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 105.17α = 90
b = 55.99β = 112.47
c = 116.03γ = 90
Symmetry
Space GroupP 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 6M2017-02-27MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I030.97628DiamondI03

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
12.4557.0799.30.0970.9949.23.74595859.9
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.452.5199.31.2740.4911.23.7

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 REPLACEMENTTHROUGHOUT1KNB2.4557.0643733222598.980.195770.192580.25845RANDOM76.9
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]
5.352.21-5.63-1.16
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.944
r_dihedral_angle_3_deg20.985
r_dihedral_angle_4_deg15.562
r_dihedral_angle_1_deg9.189
r_long_range_B_refined7.711
r_long_range_B_other7.71
r_mcangle_it4.101
r_mcangle_other4.101
r_scangle_other3.825
r_mcbond_it2.559
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.944
r_dihedral_angle_3_deg20.985
r_dihedral_angle_4_deg15.562
r_dihedral_angle_1_deg9.189
r_long_range_B_refined7.711
r_long_range_B_other7.71
r_mcangle_it4.101
r_mcangle_other4.101
r_scangle_other3.825
r_mcbond_it2.559
r_mcbond_other2.559
r_scbond_it2.425
r_scbond_other2.391
r_angle_refined_deg2.002
r_angle_other_deg1.272
r_chiral_restr0.088
r_bond_refined_d0.012
r_gen_planes_refined0.009
r_gen_planes_other0.002
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 Atoms9318
Nucleic Acid Atoms
Solvent Atoms29
Heterogen Atoms5

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
xia2data reduction
Aimlessdata scaling
PHASERphasing