X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1XBB 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2930.2M Li2SO4, 0.1M Bis-Tris pH6.5, 25% PEG 3350
Crystal Properties
Matthews coefficientSolvent content
1.9236.02

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 38.095α = 90
b = 83.903β = 101.519
c = 39.962γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 9M2023-02-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCLSI BEAMLINE 08ID-10.95373CLSI08ID-1

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
11.841.95199.90.06912.85.722844
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)
11.81.840.763

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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-VALUE1.841.95122820111899.8860.1920.18940.24432.56
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]
2.903-1.396-1.725-0.562
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.749
r_dihedral_angle_4_deg16.209
r_dihedral_angle_3_deg13.759
r_dihedral_angle_1_deg6.09
r_lrange_it5.222
r_lrange_other5.197
r_scangle_it3.558
r_scangle_other3.557
r_mcangle_it2.901
r_mcangle_other2.9
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.749
r_dihedral_angle_4_deg16.209
r_dihedral_angle_3_deg13.759
r_dihedral_angle_1_deg6.09
r_lrange_it5.222
r_lrange_other5.197
r_scangle_it3.558
r_scangle_other3.557
r_mcangle_it2.901
r_mcangle_other2.9
r_scbond_it2.213
r_scbond_other2.212
r_mcbond_it1.889
r_mcbond_other1.889
r_angle_refined_deg1.274
r_angle_other_deg1.217
r_symmetry_xyhbond_nbd_refined0.202
r_nbd_refined0.189
r_symmetry_nbd_other0.166
r_nbtor_refined0.165
r_nbd_other0.163
r_xyhbond_nbd_refined0.158
r_symmetry_nbd_refined0.122
r_symmetry_nbtor_other0.072
r_chiral_restr0.058
r_symmetry_xyhbond_nbd_other0.043
r_bond_refined_d0.005
r_gen_planes_refined0.005
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2144
Nucleic Acid Atoms
Solvent Atoms127
Heterogen Atoms33

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing