X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2F2H 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7291100 mM HEPES pH 7.0, 10% PEG MME5000, 5% tasimate pH 7.0
Crystal Properties
Matthews coefficientSolvent content
3.0659.74

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 73.113α = 80.777
b = 78.882β = 80.209
c = 176.221γ = 62.641
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER2 XE 16M2020-02-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I040.9795DiamondI04

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)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
12.4369.7598.30.0730.1030.0730.9958.43.5127078
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.432.470.7241.0240.7240.5551.43.7

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2F2H2.4369.75126937609698.1260.2250.22390.249756.614
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]
-2.5960.0012.9820.311-1.8952.49
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.366
r_dihedral_angle_4_deg20.098
r_dihedral_angle_3_deg15.865
r_dihedral_angle_1_deg7.435
r_lrange_it4.222
r_lrange_other4.218
r_mcangle_it1.804
r_mcangle_other1.804
r_scangle_it1.706
r_scangle_other1.706
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.366
r_dihedral_angle_4_deg20.098
r_dihedral_angle_3_deg15.865
r_dihedral_angle_1_deg7.435
r_lrange_it4.222
r_lrange_other4.218
r_mcangle_it1.804
r_mcangle_other1.804
r_scangle_it1.706
r_scangle_other1.706
r_angle_refined_deg1.428
r_angle_other_deg1.166
r_mcbond_it1.1
r_mcbond_other1.1
r_scbond_it1.042
r_scbond_other1.041
r_symmetry_xyhbond_nbd_refined0.28
r_nbd_other0.209
r_nbd_refined0.191
r_symmetry_nbd_other0.184
r_xyhbond_nbd_other0.172
r_nbtor_refined0.167
r_xyhbond_nbd_refined0.157
r_symmetry_nbd_refined0.096
r_ncsr_local_group_50.078
r_ncsr_local_group_10.076
r_ncsr_local_group_40.075
r_symmetry_nbtor_other0.074
r_ncsr_local_group_20.073
r_ncsr_local_group_60.071
r_ncsr_local_group_30.067
r_chiral_restr0.061
r_symmetry_xyhbond_nbd_other0.046
r_bond_refined_d0.006
r_gen_planes_refined0.006
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms18863
Nucleic Acid Atoms
Solvent Atoms233
Heterogen Atoms404

Software

Software
Software NamePurpose
REFMACrefinement
DIALSdata reduction
Aimlessdata scaling
PHASERphasing