X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5ORI 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP293Jeffamine ED2001, citric buffer pH 5.0, BaCl2
Crystal Properties
Matthews coefficientSolvent content
2.2445.11

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 41.96α = 90
b = 66.28β = 90
c = 212.58γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2014-09-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.20.9184BESSY14.2

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
11.555097.90.0490.99922.135.98540828.027
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.551.6591.90.7260.6692.114.3

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 REPLACEMENTTHROUGHOUT5ORI1.555084295111197.870.165790.164810.23853RANDOM28.027
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]
-0.68-0.541.23
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.401
r_sphericity_free29.732
r_dihedral_angle_4_deg19.115
r_sphericity_bonded15.929
r_dihedral_angle_3_deg15.674
r_long_range_B_refined6.576
r_long_range_B_other6.461
r_scangle_other6.217
r_dihedral_angle_1_deg6.027
r_scbond_it5.44
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.401
r_sphericity_free29.732
r_dihedral_angle_4_deg19.115
r_sphericity_bonded15.929
r_dihedral_angle_3_deg15.674
r_long_range_B_refined6.576
r_long_range_B_other6.461
r_scangle_other6.217
r_dihedral_angle_1_deg6.027
r_scbond_it5.44
r_scbond_other5.439
r_mcangle_it5.071
r_mcangle_other5.071
r_mcbond_it4.169
r_mcbond_other4.168
r_rigid_bond_restr3.598
r_angle_refined_deg1.981
r_angle_other_deg1.178
r_chiral_restr0.136
r_bond_refined_d0.022
r_gen_planes_other0.019
r_gen_planes_refined0.014
r_bond_other_d0.006
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_scangle_it
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4643
Nucleic Acid Atoms
Solvent Atoms501
Heterogen Atoms115

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
MOLREPphasing