X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4XVC 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP52913,2M Sodium formate + 0,1M citrate pH 5.
Crystal Properties
Matthews coefficientSolvent content
2.1643.1

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 47.883α = 90
b = 80.168β = 90
c = 144.989γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2017-05-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALBA BEAMLINE XALOC0.979ALBAXALOC

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
11.248.331000.1180.1230.0340.99711.312.9174770
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.21.221000.9940.2920.73312.4

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 REPLACEMENTTHROUGHOUT4XVC1.245.51165932872799.990.124040.122660.15049RANDOM16.314
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]
0.230.1-0.33
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.599
r_dihedral_angle_4_deg21.05
r_dihedral_angle_3_deg12.432
r_dihedral_angle_1_deg5.548
r_long_range_B_refined3.7
r_scangle_other3.364
r_long_range_B_other3.332
r_scbond_it2.905
r_scbond_other2.794
r_rigid_bond_restr2.541
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.599
r_dihedral_angle_4_deg21.05
r_dihedral_angle_3_deg12.432
r_dihedral_angle_1_deg5.548
r_long_range_B_refined3.7
r_scangle_other3.364
r_long_range_B_other3.332
r_scbond_it2.905
r_scbond_other2.794
r_rigid_bond_restr2.541
r_mcangle_other2
r_mcangle_it1.99
r_mcbond_other1.603
r_mcbond_it1.591
r_angle_refined_deg1.581
r_angle_other_deg1.264
r_chiral_restr0.111
r_bond_refined_d0.012
r_gen_planes_refined0.009
r_gen_planes_other0.004
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4486
Nucleic Acid Atoms
Solvent Atoms591
Heterogen Atoms34

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing