X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2X46PDB ENTRY 2X46

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
18.530% POLYETHYLENE GLYCOL 4000, 0.1 M TRIS.HCL, PH 8.5, 0.2 M SODIUM ACETATE
Crystal Properties
Matthews coefficientSolvent content
2.1943.89

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 107.147α = 90
b = 61.817β = 105.14
c = 63.871γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 210MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-1ESRFID14-1

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
11.43099.80.1312.17.479040
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)
11.41.598.80.8337.2

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 2X461.43075281394899.970.133020.130410.18348RANDOM7.109
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]
-0.290.26-0.280.71
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.315
r_dihedral_angle_3_deg13.292
r_dihedral_angle_4_deg12.073
r_sphericity_free7.512
r_dihedral_angle_1_deg6.088
r_scangle_it3.867
r_scbond_it3.196
r_sphericity_bonded2.684
r_mcangle_it2.222
r_mcbond_it1.758
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.315
r_dihedral_angle_3_deg13.292
r_dihedral_angle_4_deg12.073
r_sphericity_free7.512
r_dihedral_angle_1_deg6.088
r_scangle_it3.867
r_scbond_it3.196
r_sphericity_bonded2.684
r_mcangle_it2.222
r_mcbond_it1.758
r_angle_refined_deg1.59
r_rigid_bond_restr1.463
r_angle_other_deg0.868
r_mcbond_other0.604
r_nbd_refined0.21
r_symmetry_vdw_other0.207
r_xyhbond_nbd_other0.205
r_nbd_other0.199
r_symmetry_hbond_refined0.197
r_xyhbond_nbd_refined0.188
r_nbtor_refined0.181
r_symmetry_vdw_refined0.165
r_chiral_restr0.097
r_nbtor_other0.087
r_bond_refined_d0.016
r_gen_planes_refined0.008
r_bond_other_d0.001
r_gen_planes_other0.001
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3243
Nucleic Acid Atoms
Solvent Atoms908
Heterogen Atoms72

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing