X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP29320% PEG 3350, 0.18 mM benzamidine hydrochloride, 200 mM potassium formate
Crystal Properties
Matthews coefficientSolvent content
2.0239.03

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 44.825α = 90
b = 53.392β = 101.046
c = 114.514γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 S 6M2022-11-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPETRA III, DESY BEAMLINE P111.03323PETRA III, DESYP11

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
1248.2397.70.99467245946
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)
122.050.579

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-VALUE248.22735275173997.4040.230.22790.277339.615
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]
-1.888-0.71-0.9252.872
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg14.067
r_dihedral_angle_3_deg14.004
r_dihedral_angle_2_deg9.56
r_dihedral_angle_1_deg8.058
r_lrange_other7.622
r_lrange_it7.62
r_scangle_it5.764
r_scangle_other5.763
r_mcangle_it4.703
r_mcangle_other4.703
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg14.067
r_dihedral_angle_3_deg14.004
r_dihedral_angle_2_deg9.56
r_dihedral_angle_1_deg8.058
r_lrange_other7.622
r_lrange_it7.62
r_scangle_it5.764
r_scangle_other5.763
r_mcangle_it4.703
r_mcangle_other4.703
r_scbond_it3.785
r_scbond_other3.784
r_mcbond_it3.199
r_mcbond_other3.195
r_angle_refined_deg1.625
r_angle_other_deg0.69
r_symmetry_xyhbond_nbd_other0.306
r_nbd_refined0.188
r_nbtor_refined0.165
r_symmetry_nbd_other0.156
r_xyhbond_nbd_refined0.14
r_symmetry_xyhbond_nbd_refined0.137
r_nbd_other0.123
r_symmetry_nbd_refined0.098
r_ncsr_local_group_10.083
r_chiral_restr0.082
r_symmetry_nbtor_other0.071
r_bond_refined_d0.007
r_gen_planes_refined0.007
r_gen_planes_other0.003
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4658
Nucleic Acid Atoms
Solvent Atoms26
Heterogen Atoms18

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing