X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2TLXPDB ENTRY 2TLX

Crystallization

Crystal Properties
Matthews coefficientSolvent content
1.9937.55

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 92.71α = 90
b = 92.71β = 90
c = 127.6γ = 120
Symmetry
Space GroupP 61 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IVMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODE

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
11.952098.70.099.39.12383719.33
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)
11.952.0698.40.333.23.2

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 2TLX1.952021829199598.290.170020.165530.21905RANDOM18.68
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]
0.310.150.31-0.46
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.523
r_dihedral_angle_4_deg15.165
r_dihedral_angle_3_deg12.213
r_dihedral_angle_1_deg5.75
r_scangle_it2.515
r_scbond_it1.861
r_angle_refined_deg1.321
r_mcangle_it1.057
r_mcbond_it0.68
r_nbtor_refined0.303
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.523
r_dihedral_angle_4_deg15.165
r_dihedral_angle_3_deg12.213
r_dihedral_angle_1_deg5.75
r_scangle_it2.515
r_scbond_it1.861
r_angle_refined_deg1.321
r_mcangle_it1.057
r_mcbond_it0.68
r_nbtor_refined0.303
r_symmetry_hbond_refined0.252
r_symmetry_vdw_refined0.246
r_xyhbond_nbd_refined0.226
r_nbd_refined0.223
r_chiral_restr0.094
r_metal_ion_refined0.093
r_bond_refined_d0.014
r_gen_planes_refined0.005
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2432
Nucleic Acid Atoms
Solvent Atoms327
Heterogen Atoms35

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling