X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4E5EPDB entry 4E5E

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.52910.2 M magnesium chloride, 5 mM manganese chloride, 0.1 M Tris, pH 8.5, 30% w/v PEG4000
Crystal Properties
Matthews coefficientSolvent content
2.3146.68

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 73.908α = 90
b = 73.908β = 90
c = 128.282γ = 120
Symmetry
Space GroupP 64 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2014-07-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-BM1.0000APS22-BM

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)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
12.164.0061000.1190.1210.022628.412747
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)
12.12.181000.9650.9820.1790.9228.11243

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 4E5E2.150.011208462399.850.17470.17120.2438RANDOM37.181
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]
-0.47-0.23-0.471.51
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.495
r_dihedral_angle_4_deg21.032
r_dihedral_angle_3_deg15.914
r_dihedral_angle_1_deg6.372
r_mcangle_it3.295
r_mcbond_it2.221
r_mcbond_other2.216
r_angle_refined_deg2.198
r_angle_other_deg1.194
r_chiral_restr0.162
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.495
r_dihedral_angle_4_deg21.032
r_dihedral_angle_3_deg15.914
r_dihedral_angle_1_deg6.372
r_mcangle_it3.295
r_mcbond_it2.221
r_mcbond_other2.216
r_angle_refined_deg2.198
r_angle_other_deg1.194
r_chiral_restr0.162
r_bond_refined_d0.025
r_gen_planes_refined0.011
r_bond_other_d0.003
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1458
Nucleic Acid Atoms
Solvent Atoms88
Heterogen Atoms23

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing