X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2Z64 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP82930.1 M Tris, pH 8.0, 0.2 M lithium chloride, 14% PEG8000, 2.5% PEG400
Crystal Properties
Matthews coefficientSolvent content
3.9368.73

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 66.843α = 90
b = 145.737β = 100.67
c = 136.195γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2015-06-17MSINGLE 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)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
12.75096.20.0588.3454848
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.72.75

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 REPLACEMENTTHROUGHOUTPDB entry 5IJD2.739.3452860197877.180.217270.214760.28534RANDOM43.652
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]
-0.810.820.210.27
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.606
r_dihedral_angle_4_deg20.01
r_dihedral_angle_3_deg18.137
r_long_range_B_refined8.016
r_long_range_B_other8.009
r_dihedral_angle_1_deg7.782
r_scangle_other4.808
r_mcangle_it4.703
r_mcangle_other4.703
r_mcbond_it2.814
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.606
r_dihedral_angle_4_deg20.01
r_dihedral_angle_3_deg18.137
r_long_range_B_refined8.016
r_long_range_B_other8.009
r_dihedral_angle_1_deg7.782
r_scangle_other4.808
r_mcangle_it4.703
r_mcangle_other4.703
r_mcbond_it2.814
r_mcbond_other2.813
r_scbond_it2.795
r_scbond_other2.794
r_angle_other_deg2.739
r_angle_refined_deg1.8
r_chiral_restr0.092
r_bond_refined_d0.014
r_gen_planes_refined0.006
r_gen_planes_other0.006
r_bond_other_d0.001
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 Atoms11903
Nucleic Acid Atoms
Solvent Atoms232
Heterogen Atoms242

Software

Software
Software NamePurpose
REFMACrefinement
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing