X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4UNUPDB ENTRY 4UNU

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
18.50.2 M NH4CL, 2.2 M (NH4)2SO4, 0.5 M METHYLENE BLUE, pH 8.5
Crystal Properties
Matthews coefficientSolvent content
1.935

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 39.22α = 90
b = 31.08β = 90.09
c = 73.63γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M-F2014-08-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 24-ID-CAPS24-ID-C

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)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
11.0540890.07103.5738083
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.051.08820.592.43.5

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 4UNU1.0539.2278400410298.810.110920.110330.12234RANDOM16.864
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]
-5.54-1.585.440.11
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.715
r_dihedral_angle_4_deg29.251
r_sphericity_free26.787
r_dihedral_angle_3_deg10.971
r_sphericity_bonded8.157
r_rigid_bond_restr7.427
r_dihedral_angle_1_deg7.068
r_angle_refined_deg3.272
r_scbond_it2.642
r_angle_other_deg2.182
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.715
r_dihedral_angle_4_deg29.251
r_sphericity_free26.787
r_dihedral_angle_3_deg10.971
r_sphericity_bonded8.157
r_rigid_bond_restr7.427
r_dihedral_angle_1_deg7.068
r_angle_refined_deg3.272
r_scbond_it2.642
r_angle_other_deg2.182
r_mcangle_it2.052
r_mcbond_other2.03
r_mcbond_it2.028
r_chiral_restr0.244
r_bond_refined_d0.046
r_gen_planes_refined0.019
r_gen_planes_other0.015
r_bond_other_d0.007
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_it
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1596
Nucleic Acid Atoms
Solvent Atoms208
Heterogen Atoms56

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing