X-RAY DIFFRACTION

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.754.47

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 120.96α = 90
b = 120.96β = 90
c = 83.128γ = 120
Symmetry
Space GroupH 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS HTCMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU FR-E1.54

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
11.750990.06122.97749482
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)
1.71.7387.40.5732183

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 2O8H1.73049409380399.050.1590.1570.185RANDOM24.816
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]
-0.81-0.41-0.811.22
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg4.785
r_scangle_it3.51
r_scbond_it2.111
r_mcangle_it1.309
r_angle_refined_deg1.186
r_angle_other_deg0.802
r_mcbond_it0.646
r_symmetry_vdw_other0.259
r_nbd_other0.237
r_nbd_refined0.225
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg4.785
r_scangle_it3.51
r_scbond_it2.111
r_mcangle_it1.309
r_angle_refined_deg1.186
r_angle_other_deg0.802
r_mcbond_it0.646
r_symmetry_vdw_other0.259
r_nbd_other0.237
r_nbd_refined0.225
r_symmetry_hbond_refined0.211
r_xyhbond_nbd_refined0.167
r_metal_ion_refined0.151
r_symmetry_vdw_refined0.149
r_nbtor_other0.08
r_chiral_restr0.069
r_bond_refined_d0.01
r_gen_planes_other0.007
r_gen_planes_refined0.006
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2461
Nucleic Acid Atoms
Solvent Atoms576
Heterogen Atoms28

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
CrystalCleardata collection
d*TREKdata reduction
d*TREKdata scaling
REFMACphasing