X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP277(NH4)2SO4
Crystal Properties
Matthews coefficientSolvent content
3.5164.94

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 83.435α = 90
b = 123.715β = 90
c = 150.723γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRIGAKU2015-06-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRF BEAMLINE BL17U0.9792SSRFBL17U

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
12.91501000.09826.27.835059

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 REPLACEMENTTHROUGHOUT5WRV2.9150.0133221171999.920.233710.231940.2664RANDOM93.944
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]
4.41-3.21-1.2
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.611
r_dihedral_angle_3_deg16.856
r_dihedral_angle_4_deg14.454
r_long_range_B_refined10.431
r_long_range_B_other10.422
r_mcangle_it7.774
r_mcangle_other7.774
r_scangle_other6.914
r_dihedral_angle_1_deg5.666
r_mcbond_it4.828
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.611
r_dihedral_angle_3_deg16.856
r_dihedral_angle_4_deg14.454
r_long_range_B_refined10.431
r_long_range_B_other10.422
r_mcangle_it7.774
r_mcangle_other7.774
r_scangle_other6.914
r_dihedral_angle_1_deg5.666
r_mcbond_it4.828
r_mcbond_other4.828
r_scbond_it4.214
r_scbond_other4.203
r_angle_refined_deg1.2
r_angle_other_deg0.942
r_chiral_restr0.063
r_bond_refined_d0.009
r_gen_planes_refined0.004
r_bond_other_d0.002
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 Atoms6143
Nucleic Acid Atoms
Solvent Atoms89
Heterogen Atoms10

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing