X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4KG8PDB ENTRY 4KG8, 4FHQ
experimental modelPDB 4FHQPDB ENTRY 4KG8, 4FHQ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
15.52900.2M MAGNESIUM CHLORIDE, 0.1M BIS:TRIS BUFFER, 9% W/V PEG3350, PH 5.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290.0K
Crystal Properties
Matthews coefficientSolvent content
2.6553.65

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 111.651α = 90
b = 113.604β = 90
c = 163.279γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152014-06-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSLS BEAMLINE X29ANSLSX29A

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
12.35099.90.1250.08421.710.892792
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.32.3499.70.9360.8183.110.7

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 4KG8, 4FHQ2.348.9287967463199.820.190520.18830.23145RANDOM38.402
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]
-0.02-0.030.04
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.569
r_dihedral_angle_4_deg20.534
r_dihedral_angle_3_deg17.347
r_dihedral_angle_1_deg7.87
r_long_range_B_other7.438
r_long_range_B_refined7.437
r_scangle_other5.299
r_mcangle_it4.383
r_mcangle_other4.199
r_scbond_it3.722
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.569
r_dihedral_angle_4_deg20.534
r_dihedral_angle_3_deg17.347
r_dihedral_angle_1_deg7.87
r_long_range_B_other7.438
r_long_range_B_refined7.437
r_scangle_other5.299
r_mcangle_it4.383
r_mcangle_other4.199
r_scbond_it3.722
r_scbond_other3.524
r_mcbond_it2.838
r_mcbond_other2.834
r_angle_refined_deg2.081
r_angle_other_deg0.893
r_chiral_restr0.107
r_bond_refined_d0.021
r_gen_planes_refined0.009
r_bond_other_d0.006
r_gen_planes_other0.001
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 Atoms11198
Nucleic Acid Atoms
Solvent Atoms223
Heterogen Atoms132

Software

Software
Software NamePurpose
MOLREPphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling