X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5ILE 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1BATCH MODE2982.3-2.6 Ammonium Sulfate, 100 mM Tris-HCl, 1 mm EDTA, pH 7.4
Crystal Properties
Matthews coefficientSolvent content
2.2845.99

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 41.825α = 90
b = 76.772β = 103.8
c = 50.529γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray200PIXELDECTRIS PILATUS 200K2018-08-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007 HF1.5418

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
11.850970.0740.0790.02711.77.827916
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)
11.81.8387.50.3610.4190.2080.9053.7

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 REPLACEMENTTHROUGHOUT5ile1.841.3826533133396.780.17760.17510.2272RANDOM17.09
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]
-0.580.27-0.340.7
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.828
r_dihedral_angle_4_deg20.051
r_dihedral_angle_3_deg13.206
r_dihedral_angle_1_deg11.249
r_angle_refined_deg1.644
r_angle_other_deg1.471
r_chiral_restr0.089
r_bond_refined_d0.012
r_gen_planes_refined0.009
r_gen_planes_other0.005
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.828
r_dihedral_angle_4_deg20.051
r_dihedral_angle_3_deg13.206
r_dihedral_angle_1_deg11.249
r_angle_refined_deg1.644
r_angle_other_deg1.471
r_chiral_restr0.089
r_bond_refined_d0.012
r_gen_planes_refined0.009
r_gen_planes_other0.005
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2440
Nucleic Acid Atoms
Solvent Atoms323
Heterogen Atoms109

Software

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