X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4DOTPDB ENTRY 4DOT

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP8.52980.1 M Tris/HCl, pH 8.5, 0.2 M NaCl, 20% (w/v) polyethylene glycol 3350, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.3246.98

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 63.123α = 90
b = 63.123β = 90
c = 157.965γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray77PIXELDECTRIS PILATUS 6M-F2013-07-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 24-ID-C0.9795APS24-ID-C

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
12.249.3298.51683616797-3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 4DOT2.249.3216836167748400.209220.209220.207110.24767RANDOM63.186
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]
0.270.27-0.54
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.695
r_dihedral_angle_4_deg17.145
r_dihedral_angle_3_deg15.919
r_long_range_B_other8.163
r_long_range_B_refined8.162
r_dihedral_angle_1_deg7.144
r_scangle_other5.528
r_mcangle_other4.367
r_mcangle_it4.366
r_scbond_it3.705
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.695
r_dihedral_angle_4_deg17.145
r_dihedral_angle_3_deg15.919
r_long_range_B_other8.163
r_long_range_B_refined8.162
r_dihedral_angle_1_deg7.144
r_scangle_other5.528
r_mcangle_other4.367
r_mcangle_it4.366
r_scbond_it3.705
r_scbond_other3.705
r_mcbond_it2.977
r_mcbond_other2.976
r_angle_refined_deg1.676
r_angle_other_deg1.111
r_chiral_restr0.084
r_bond_refined_d0.014
r_gen_planes_refined0.008
r_bond_other_d0.005
r_gen_planes_other0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2167
Nucleic Acid Atoms
Solvent Atoms60
Heterogen Atoms16

Software

Software
Software NamePurpose
XDSdata scaling
PHASERphasing
REFMACrefinement
XDSdata reduction