X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3WZL 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.52980.2 M Ammonium Sulfate, 0.085 M Sodium Cacodylate pH 6.5, 25-28% w/v Polyethylene Glycol 8000 and 15% v/v Glycerol
Crystal Properties
Matthews coefficientSolvent content
3.0960.26

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 75.47α = 90.21
b = 95.196β = 92.34
c = 101.663γ = 91.48
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX300-HS2017-04-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSRRC BEAMLINE TPS 05A0.9998NSRRCTPS 05A

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
11.882597.80.0587.94224832
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)
11.881.9596.50.3023.9

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 REPLACEMENTTHROUGHOUT3WZL1.8824.95222748199997.720.145510.145190.1811RANDOM27.828
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.779
r_dihedral_angle_4_deg12.775
r_dihedral_angle_3_deg12.164
r_long_range_B_refined7.131
r_long_range_B_other7.071
r_dihedral_angle_1_deg6.7
r_scangle_other5.105
r_scbond_other3.522
r_scbond_it3.521
r_mcangle_other3.125
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.779
r_dihedral_angle_4_deg12.775
r_dihedral_angle_3_deg12.164
r_long_range_B_refined7.131
r_long_range_B_other7.071
r_dihedral_angle_1_deg6.7
r_scangle_other5.105
r_scbond_other3.522
r_scbond_it3.521
r_mcangle_other3.125
r_mcangle_it3.124
r_mcbond_it2.529
r_mcbond_other2.527
r_angle_refined_deg2.085
r_angle_other_deg1.267
r_chiral_restr0.132
r_bond_refined_d0.023
r_gen_planes_refined0.012
r_bond_other_d0.004
r_gen_planes_other0.002
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 Atoms16430
Nucleic Acid Atoms
Solvent Atoms2594
Heterogen Atoms184

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data collection
HKL-2000data scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHASERphasing