X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5MW8 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.25291Magnesium chloride, MES, PEG 6000
Crystal Properties
Matthews coefficientSolvent content
2.6855.75

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.623α = 90
b = 140.758β = 106.53
c = 68.662γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 6M2015-09-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALBA BEAMLINE XALOC0.979490ALBAXALOC

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
13.270.3899.314.76.919318

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 REPLACEMENTTHROUGHOUT5MW83.270.381837891899.160.226140.225130.24529RANDOM102.045
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]
7.113.1-4.73-3.58
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.254
r_dihedral_angle_3_deg15.047
r_dihedral_angle_4_deg13.882
r_long_range_B_refined9.211
r_long_range_B_other9.211
r_mcangle_it5.872
r_mcangle_other5.872
r_dihedral_angle_1_deg5.728
r_scangle_other5.039
r_mcbond_it3.405
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.254
r_dihedral_angle_3_deg15.047
r_dihedral_angle_4_deg13.882
r_long_range_B_refined9.211
r_long_range_B_other9.211
r_mcangle_it5.872
r_mcangle_other5.872
r_dihedral_angle_1_deg5.728
r_scangle_other5.039
r_mcbond_it3.405
r_mcbond_other3.404
r_scbond_it2.829
r_scbond_other2.826
r_angle_refined_deg1.185
r_angle_other_deg0.867
r_chiral_restr0.064
r_bond_refined_d0.007
r_gen_planes_refined0.004
r_bond_other_d0.001
r_gen_planes_other0.001
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 Atoms6574
Nucleic Acid Atoms
Solvent Atoms3
Heterogen Atoms69

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
Aimlessdata scaling
Cootmodel building