X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5LR8 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.828830% PEG4000, 0.1M Nacitrate
Crystal Properties
Matthews coefficientSolvent content
2.3447.42

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 230.33α = 90
b = 63.68β = 115.07
c = 149.33γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2013-07-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID290.95373ESRFID29

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
12.950980.1377.63.243219
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.93.11.1530.982.7

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 REPLACEMENTTHROUGHOUT5LR82.948.9241921129798.160.213580.212570.24602RANDOM76.706
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]
2.020.48-3.190.66
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.342
r_dihedral_angle_4_deg17.322
r_dihedral_angle_3_deg16.817
r_dihedral_angle_1_deg5.648
r_long_range_B_refined5.265
r_long_range_B_other5.265
r_scangle_other2.369
r_mcangle_it2.262
r_mcangle_other2.262
r_scbond_it1.407
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.342
r_dihedral_angle_4_deg17.322
r_dihedral_angle_3_deg16.817
r_dihedral_angle_1_deg5.648
r_long_range_B_refined5.265
r_long_range_B_other5.265
r_scangle_other2.369
r_mcangle_it2.262
r_mcangle_other2.262
r_scbond_it1.407
r_scbond_other1.406
r_mcbond_it1.329
r_mcbond_other1.329
r_angle_refined_deg1.107
r_angle_other_deg0.754
r_chiral_restr0.074
r_bond_refined_d0.007
r_gen_planes_refined0.004
r_bond_other_d0.001
r_gen_planes_other0.001
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 Atoms13420
Nucleic Acid Atoms
Solvent Atoms56
Heterogen Atoms142

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
MOLREPphasing