X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4HJP 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2930.1M Hepes pH7.5, 2% PEG 400, 2.0M (NH4)2SO4
Crystal Properties
Matthews coefficientSolvent content
2.1442.61

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 45.302α = 90
b = 56.498β = 90
c = 110.258γ = 90
Symmetry
Space GroupP 21 2 21

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
11.7545.399.90.08816.413.429341
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)
11.751.780.975

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-VALUE1.7539.48829270142099.8360.1940.19250.226630.129
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]
-1.9271.3860.541
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg13.518
r_dihedral_angle_3_deg10.294
r_dihedral_angle_1_deg6.321
r_lrange_it5.234
r_lrange_other5.183
r_dihedral_angle_2_deg4.274
r_scangle_it3.539
r_scangle_other3.538
r_mcangle_it2.583
r_mcangle_other2.582
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg13.518
r_dihedral_angle_3_deg10.294
r_dihedral_angle_1_deg6.321
r_lrange_it5.234
r_lrange_other5.183
r_dihedral_angle_2_deg4.274
r_scangle_it3.539
r_scangle_other3.538
r_mcangle_it2.583
r_mcangle_other2.582
r_scbond_it2.137
r_scbond_other2.137
r_mcbond_it1.587
r_mcbond_other1.586
r_angle_refined_deg1.087
r_angle_other_deg0.404
r_nbd_refined0.2
r_symmetry_nbd_other0.181
r_nbd_other0.178
r_nbtor_refined0.174
r_symmetry_nbd_refined0.158
r_symmetry_xyhbond_nbd_refined0.127
r_xyhbond_nbd_refined0.121
r_symmetry_nbtor_other0.074
r_chiral_restr0.058
r_symmetry_xyhbond_nbd_other0.027
r_gen_planes_refined0.004
r_bond_refined_d0.003
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2254
Nucleic Acid Atoms
Solvent Atoms185
Heterogen Atoms18

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing