X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1I58 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5294.15PEG 8000 30% Ammonium acetate 0.6 M Sodium acetate 0.065 M ph 4.5
Crystal Properties
Matthews coefficientSolvent content
1.8734.24

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 40.824α = 90
b = 59.087β = 97.418
c = 65.929γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 9M2020-12-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04-10.912630DiamondI04-1

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
11.865.3899.10.0230.0320.0220.998303.228644
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)
11.81.8470.0480.0660.0450.9953.1

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-VALUE1.865.37728627144798.8670.1830.18090.230418.394
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]
-0.521-0.0030.0560.451
RMS Deviations
KeyRefinement Restraint Deviation
r_lrange_other26.595
r_lrange_it26.52
r_dihedral_angle_2_deg24.067
r_dihedral_angle_6_deg17.737
r_dihedral_angle_3_deg15.843
r_scangle_it6.101
r_scangle_other6.1
r_dihedral_angle_1_deg5.631
r_scbond_it4.035
r_scbond_other4.035
RMS Deviations
KeyRefinement Restraint Deviation
r_lrange_other26.595
r_lrange_it26.52
r_dihedral_angle_2_deg24.067
r_dihedral_angle_6_deg17.737
r_dihedral_angle_3_deg15.843
r_scangle_it6.101
r_scangle_other6.1
r_dihedral_angle_1_deg5.631
r_scbond_it4.035
r_scbond_other4.035
r_mcangle_it2.913
r_mcangle_other2.912
r_mcbond_it2.031
r_mcbond_other2.03
r_angle_refined_deg1.963
r_angle_other_deg0.637
r_symmetry_nbd_refined0.388
r_xyhbond_nbd_other0.374
r_symmetry_xyhbond_nbd_refined0.354
r_nbd_other0.282
r_nbd_refined0.24
r_symmetry_nbd_other0.194
r_nbtor_refined0.184
r_xyhbond_nbd_refined0.147
r_ncsr_local_group_10.117
r_chiral_restr0.091
r_symmetry_nbtor_other0.084
r_dihedral_angle_other_2_deg0.073
r_bond_refined_d0.015
r_gen_planes_refined0.011
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2685
Nucleic Acid Atoms
Solvent Atoms162
Heterogen Atoms40

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
DIALSdata reduction
PHASERphasing