X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6BHDearlier version of model from PDB entry 6BHD

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION7.529125% PEG3350, 0.2 M lithium sulfate, 0.1 M HEPES
Crystal Properties
Matthews coefficientSolvent content
2.3647.8

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 37.849α = 90
b = 71.718β = 104.48
c = 52.69γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2013-12-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-ID0.97918APS19-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)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
11.441.5799.70.0650.0760.040.99812.53.653403
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.41.421000.9421.1040.570.5413.72726

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-FreeMean Isotropic B
X-RAY DIFFRACTIONFOURIER SYNTHESISTHROUGHOUTearlier version of model from PDB entry 6BHD1.441.5750707267199.520.14960.14760.187217.643
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]
0.01-0.290.050.07
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.164
r_sphericity_free22.424
r_dihedral_angle_4_deg15.268
r_dihedral_angle_3_deg11.661
r_sphericity_bonded9.88
r_dihedral_angle_1_deg6.875
r_mcangle_it2.929
r_mcbond_it2.577
r_mcbond_other2.577
r_rigid_bond_restr2.294
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.164
r_sphericity_free22.424
r_dihedral_angle_4_deg15.268
r_dihedral_angle_3_deg11.661
r_sphericity_bonded9.88
r_dihedral_angle_1_deg6.875
r_mcangle_it2.929
r_mcbond_it2.577
r_mcbond_other2.577
r_rigid_bond_restr2.294
r_angle_refined_deg1.82
r_angle_other_deg1.014
r_chiral_restr0.119
r_bond_refined_d0.017
r_gen_planes_refined0.01
r_bond_other_d0.003
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1763
Nucleic Acid Atoms
Solvent Atoms225
Heterogen Atoms35

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
PHASERphasing