X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4F49 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2930.2 M sodium citrate, 0.1 M Bis Tris propane 7.0, 25 % w/v PEG 3350
Crystal Properties
Matthews coefficientSolvent content
2.9758.54

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 156.975α = 90
b = 125.749β = 97.47
c = 160.418γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX300-HS2020-08-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSRRC BEAMLINE TPS 05A0.99984NSRRCTPS 05A

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rpim I (All)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
12.753099.30.0620.03620.393.779392
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.752.8599.70.3860.2340.914

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 REPLACEMENTTHROUGHOUT4F492.7527.8273326392696.360.213560.212540.23276RANDOM50.376
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]
-0.06-0.170.070.04
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.315
r_dihedral_angle_3_deg19.04
r_dihedral_angle_4_deg16.939
r_long_range_B_other9.618
r_long_range_B_refined9.613
r_dihedral_angle_1_deg8.561
r_mcangle_it6.668
r_mcangle_other6.667
r_scangle_other6.216
r_mcbond_it4.198
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.315
r_dihedral_angle_3_deg19.04
r_dihedral_angle_4_deg16.939
r_long_range_B_other9.618
r_long_range_B_refined9.613
r_dihedral_angle_1_deg8.561
r_mcangle_it6.668
r_mcangle_other6.667
r_scangle_other6.216
r_mcbond_it4.198
r_mcbond_other4.198
r_scbond_other3.842
r_scbond_it3.84
r_angle_other_deg2.372
r_angle_refined_deg1.319
r_chiral_restr0.05
r_bond_other_d0.036
r_bond_refined_d0.008
r_gen_planes_refined0.008
r_gen_planes_other0.007
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 Atoms18224
Nucleic Acid Atoms
Solvent Atoms108
Heterogen Atoms232

Software

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