X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4CI6 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.5279.150.1M HEPES, pH 7.5, 30% PEG 400, 0.2M NaCl
Crystal Properties
Matthews coefficientSolvent content
3.3563.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 108.73α = 90
b = 121.75β = 104.88
c = 118.58γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDADSC QUANTUM 3152013-09-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I030.97626DiamondI03

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
12.93114.699.90.12511.96.86421263.37
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)
12.933.0199.80.7782.76.6

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 REPLACEMENTTHROUGHOUT4CI62.93114.664212323099.30.198070.195880.24024RANDOM69.26
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]
-1.742.88-9.78.68
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.686
r_dihedral_angle_4_deg17.578
r_dihedral_angle_3_deg15.152
r_long_range_B_refined7.248
r_long_range_B_other7.248
r_dihedral_angle_1_deg5.797
r_scangle_other3.803
r_mcangle_it3.437
r_mcangle_other3.437
r_scbond_it2.265
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.686
r_dihedral_angle_4_deg17.578
r_dihedral_angle_3_deg15.152
r_long_range_B_refined7.248
r_long_range_B_other7.248
r_dihedral_angle_1_deg5.797
r_scangle_other3.803
r_mcangle_it3.437
r_mcangle_other3.437
r_scbond_it2.265
r_scbond_other2.265
r_mcbond_it2.059
r_mcbond_other2.059
r_angle_refined_deg1.44
r_angle_other_deg1.168
r_chiral_restr0.075
r_bond_refined_d0.01
r_gen_planes_refined0.005
r_bond_other_d0.004
r_gen_planes_other0.003
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
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms14992
Nucleic Acid Atoms
Solvent Atoms9
Heterogen Atoms120

Software

Software
Software NamePurpose
PHENIXrefinement
xia2data reduction
xia2data scaling
PHASERphasing
REFMACrefinement