X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6ZXB 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP289.150.06 M Divalents, 0.1M Buffer System 1 pH 6.5, 50%v/v Precipitant Mix 2 (Morpheus I A2). Divalents: 0.3M Magnesium chloride hexahydrate; 0.3M Calcium chloride dehydrate. Buffer System 1: 1.0M Imidazole; MES monohydrate (acid), pH 6.5. Precipitant Mix 2: EDO_P8K, 40% v/v Ethylene glycol, 20 % w/v PEG 8000.
Crystal Properties
Matthews coefficientSolvent content
2.3748.05

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 132.812α = 90
b = 247.368β = 90
c = 41.539γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray93.15PIXELDECTRIS PILATUS 2M-F2017-10-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06DA1.0SLSX06DA

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
12.745.2695.60.1440.1770.1010.9916.34.336666
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.72.8293.10.9010.6490.5131.64.2

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 REPLACEMENTTHROUGHOUT6ZXB2.83035759159993.660.22820.236580.28813RANDOM66.792
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]
1.55-0.43-3.11.5
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.442
r_dihedral_angle_4_deg18.974
r_dihedral_angle_3_deg17.721
r_dihedral_angle_1_deg6.927
r_angle_refined_deg1.861
r_angle_other_deg1.271
r_chiral_restr0.129
r_bond_refined_d0.01
r_gen_planes_refined0.006
r_bond_other_d0.001
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.442
r_dihedral_angle_4_deg18.974
r_dihedral_angle_3_deg17.721
r_dihedral_angle_1_deg6.927
r_angle_refined_deg1.861
r_angle_other_deg1.271
r_chiral_restr0.129
r_bond_refined_d0.01
r_gen_planes_refined0.006
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms9360
Nucleic Acid Atoms
Solvent Atoms33
Heterogen Atoms136

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing