X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3IXF 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.5277.15MPEG 2000, ammonium sulfate, Na cacodylate
Crystal Properties
Matthews coefficientSolvent content
2.2445.15

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 60.716α = 90
b = 67.532β = 90
c = 67.44γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX300-HS2021-09-22MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-BM1.0000APS22-BM

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
11.71833.7799.40.0560.99631.2530039
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)
11.721.7620.803

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 REPLACEMENTTHROUGHOUT3IXF1.71833.76630039146699.4010.1610.15890.198828.651
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]
20.295-5.48-14.815
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.814
r_dihedral_angle_4_deg23.053
r_dihedral_angle_3_deg18.555
r_lrange_other8.393
r_lrange_it8.387
r_dihedral_angle_1_deg6.909
r_scangle_it3.519
r_scangle_other3.514
r_mcangle_other2.497
r_mcangle_it2.496
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.814
r_dihedral_angle_4_deg23.053
r_dihedral_angle_3_deg18.555
r_lrange_other8.393
r_lrange_it8.387
r_dihedral_angle_1_deg6.909
r_scangle_it3.519
r_scangle_other3.514
r_mcangle_other2.497
r_mcangle_it2.496
r_scbond_it2.441
r_scbond_other2.44
r_angle_refined_deg2.169
r_mcbond_other1.824
r_mcbond_it1.822
r_angle_other_deg1.58
r_symmetry_nbd_refined0.346
r_nbd_refined0.289
r_symmetry_xyhbond_nbd_refined0.258
r_symmetry_nbd_other0.233
r_nbd_other0.213
r_nbtor_refined0.187
r_xyhbond_nbd_refined0.16
r_chiral_restr0.119
r_symmetry_nbtor_other0.087
r_bond_refined_d0.016
r_gen_planes_refined0.014
r_gen_planes_other0.006
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2151
Nucleic Acid Atoms
Solvent Atoms104
Heterogen Atoms122

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing