X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4X90 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.5277100 mM HEPES pH 7.5, 3.5% PEG 8000, 28% MPD, 300 mM (NH4)2HPO4
Crystal Properties
Matthews coefficientSolvent content
2.8456.75

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.147α = 88.85
b = 85.495β = 70.87
c = 88.852γ = 79.74
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCD2013-07-28MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-D0.97857APS21-ID-D

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
12.653093.20.0890.1250.0896.41.952162
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)
12.652.740.5730.810.5730.2221.2111

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 REPLACEMENTTHROUGHOUT4X902.653049603255894.70.18130.17940.2191RANDOM39.398
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]
1.31.46-0.29-1-0.70.19
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.427
r_dihedral_angle_4_deg15.994
r_dihedral_angle_3_deg14.054
r_dihedral_angle_1_deg6.16
r_mcangle_it3.282
r_mcbond_it2.018
r_mcbond_other2.014
r_angle_refined_deg1.788
r_angle_other_deg1.262
r_chiral_restr0.097
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.427
r_dihedral_angle_4_deg15.994
r_dihedral_angle_3_deg14.054
r_dihedral_angle_1_deg6.16
r_mcangle_it3.282
r_mcbond_it2.018
r_mcbond_other2.014
r_angle_refined_deg1.788
r_angle_other_deg1.262
r_chiral_restr0.097
r_bond_refined_d0.015
r_gen_planes_refined0.009
r_bond_other_d0.008
r_gen_planes_other0.008
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms12098
Nucleic Acid Atoms
Solvent Atoms232
Heterogen Atoms372

Software

Software
Software NamePurpose
HKL-2000data scaling
SCALEPACKdata scaling
Aimlessdata scaling
Cootmodel building
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction