X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5W0R 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP62980.26 M NaCl, 0.1 M MES pH 6.0, 12% PEG3350
Crystal Properties
Matthews coefficientSolvent content
2.550.72

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 38.68α = 90
b = 167.65β = 90
c = 188.3γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152015-03-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 24-ID-E0.9793APS24-ID-E

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
13.6188.399.86.47.912574
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.613.7499.80.7430.68818.1

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 REPLACEMENTTHROUGHOUT5W0R3.61251257467288.70.276010.27430.30693RANDOM64.687
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]
0.39-0.1-0.28
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.634
r_dihedral_angle_3_deg14.722
r_dihedral_angle_4_deg13.215
r_long_range_B_refined6.961
r_long_range_B_other6.961
r_dihedral_angle_1_deg6.028
r_mcangle_it4.121
r_mcangle_other4.12
r_scangle_other3.464
r_mcbond_it2.252
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.634
r_dihedral_angle_3_deg14.722
r_dihedral_angle_4_deg13.215
r_long_range_B_refined6.961
r_long_range_B_other6.961
r_dihedral_angle_1_deg6.028
r_mcangle_it4.121
r_mcangle_other4.12
r_scangle_other3.464
r_mcbond_it2.252
r_mcbond_other2.252
r_scbond_it1.868
r_scbond_other1.868
r_angle_refined_deg1.201
r_angle_other_deg1.115
r_chiral_restr0.062
r_bond_refined_d0.008
r_bond_other_d0.004
r_gen_planes_refined0.004
r_gen_planes_other0.002
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 Atoms8534
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms2

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing