X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5EG7PDB entry 5EG7

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.862770.1 M ammonium acetate, 0.1 M Bis Tris, pH 5.86, 20% PEG8000
Crystal Properties
Matthews coefficientSolvent content
2.2445.21

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 36.863α = 90
b = 72.429β = 103.18
c = 61.316γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2017-04-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-BM1APS22-BM

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
11.5272.4399.30.0630.0760.0420.998113.247950
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)
11.521.551000.6310.7630.4250.8093.2

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 5EG71.523945487243899.240.15110.14780.2096RANDOM21.183
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]
-0.83-0.05-0.971.64
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.255
r_sphericity_free26.663
r_dihedral_angle_4_deg18.302
r_sphericity_bonded13.344
r_dihedral_angle_3_deg12.9
r_dihedral_angle_1_deg6.865
r_rigid_bond_restr4.137
r_angle_refined_deg2.239
r_angle_other_deg1.197
r_chiral_restr0.155
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.255
r_sphericity_free26.663
r_dihedral_angle_4_deg18.302
r_sphericity_bonded13.344
r_dihedral_angle_3_deg12.9
r_dihedral_angle_1_deg6.865
r_rigid_bond_restr4.137
r_angle_refined_deg2.239
r_angle_other_deg1.197
r_chiral_restr0.155
r_bond_refined_d0.026
r_bond_other_d0.013
r_gen_planes_refined0.012
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2489
Nucleic Acid Atoms
Solvent Atoms336
Heterogen Atoms48

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
MOLREPphasing
XDSdata reduction