X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 7LRL 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP2900.4M CaCl2, 10-20% PEG3350
Crystal Properties
Matthews coefficientSolvent content
2.2841.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 57.943α = 90
b = 63.585β = 90
c = 123.633γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2015-01-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 5.0.30.976ALS5.0.3

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)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
11.45090.420.0480.0231.956.481954
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.41.4255.30.5210.2270.8692.8

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE7LRL1.430.8181954409790.420.1610.15970.184719.303
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]
-0.0140.0040.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.817
r_dihedral_angle_4_deg17.219
r_dihedral_angle_3_deg13.974
r_lrange_it5.803
r_lrange_other5.803
r_dihedral_angle_1_deg5.781
r_scangle_it4.523
r_scangle_other4.522
r_scbond_it2.947
r_scbond_other2.947
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.817
r_dihedral_angle_4_deg17.219
r_dihedral_angle_3_deg13.974
r_lrange_it5.803
r_lrange_other5.803
r_dihedral_angle_1_deg5.781
r_scangle_it4.523
r_scangle_other4.522
r_scbond_it2.947
r_scbond_other2.947
r_mcangle_other2.527
r_mcangle_it2.525
r_angle_refined_deg1.903
r_mcbond_it1.75
r_mcbond_other1.736
r_angle_other_deg1.526
r_nbd_refined0.234
r_nbd_other0.21
r_symmetry_nbd_refined0.201
r_xyhbond_nbd_refined0.194
r_symmetry_nbd_other0.189
r_symmetry_xyhbond_nbd_other0.178
r_nbtor_refined0.177
r_symmetry_xyhbond_nbd_refined0.123
r_chiral_restr0.104
r_symmetry_nbtor_other0.087
r_bond_refined_d0.013
r_gen_planes_refined0.011
r_gen_planes_other0.007
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3511
Nucleic Acid Atoms
Solvent Atoms312
Heterogen Atoms109

Software

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