X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP29320% PEG 3350, 0.1 mM benzamidine hydrochloride, 200 mM potassium formate
Crystal Properties
Matthews coefficientSolvent content
2.0138.78

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 117.136α = 90
b = 53.802β = 100.174
c = 45.286γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 S 6M2023-02-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-10.9677ESRFID23-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)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
12.6357.6583.10.9896.36.512088
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.632.850.322

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-VALUE2.6348.802717434685.4760.2440.23920.33644.221
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]
-0.527-0.398-0.6111.203
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg19.413
r_lrange_it19.303
r_scangle_it17.238
r_dihedral_angle_6_deg15.143
r_dihedral_angle_3_deg14.999
r_mcangle_it14.441
r_scbond_it13.206
r_mcbond_it10.645
r_dihedral_angle_1_deg7.803
r_angle_refined_deg1.6
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg19.413
r_lrange_it19.303
r_scangle_it17.238
r_dihedral_angle_6_deg15.143
r_dihedral_angle_3_deg14.999
r_mcangle_it14.441
r_scbond_it13.206
r_mcbond_it10.645
r_dihedral_angle_1_deg7.803
r_angle_refined_deg1.6
r_nbtor_refined0.32
r_nbd_refined0.25
r_xyhbond_nbd_refined0.21
r_symmetry_nbd_refined0.19
r_symmetry_xyhbond_nbd_refined0.074
r_chiral_restr0.071
r_bond_refined_d0.012
r_gen_planes_refined0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2320
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing