X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1WUB 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.5298HEPES, PEG 6000
Crystal Properties
Matthews coefficientSolvent content
2.243.99

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 51.16α = 90
b = 101.17β = 97.2
c = 63.49γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX300HE2015-06-11MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCLSI BEAMLINE 08ID-10.97949CLSI08ID-1

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
11.637.3397.30.0610.99711.33.882019
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)
11.61.6378.70.2983.13495

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 REPLACEMENTTHROUGHOUT1WUB1.637.3377882409097.210.161890.160170.19448RANDOM22.251
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]
-1.190.070.650.52
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.021
r_dihedral_angle_4_deg14.176
r_dihedral_angle_3_deg14.027
r_long_range_B_refined7.044
r_long_range_B_other7.032
r_dihedral_angle_1_deg6.471
r_scangle_other5.227
r_scbond_it3.465
r_scbond_other3.465
r_mcangle_it2.812
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.021
r_dihedral_angle_4_deg14.176
r_dihedral_angle_3_deg14.027
r_long_range_B_refined7.044
r_long_range_B_other7.032
r_dihedral_angle_1_deg6.471
r_scangle_other5.227
r_scbond_it3.465
r_scbond_other3.465
r_mcangle_it2.812
r_mcangle_other2.812
r_angle_refined_deg2.391
r_mcbond_it1.86
r_mcbond_other1.86
r_angle_other_deg0.95
r_chiral_restr0.143
r_bond_refined_d0.024
r_gen_planes_refined0.012
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 Atoms5218
Nucleic Acid Atoms
Solvent Atoms482
Heterogen Atoms203

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
Aimlessdata scaling
PHASERphasing
PDB_EXTRACTdata extraction