X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3D92 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.82931.3 M sodium citrate 100 mM TrisHCl pH 7.8
Crystal Properties
Matthews coefficientSolvent content
2.0840.99

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.305α = 90
b = 41.365β = 104.12
c = 71.944γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2702010-12-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCHESS BEAMLINE F10.918CHESSF1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
10.93095.214.14.7162430
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
10.90.9273.61.92.8

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 REPLACEMENTTHROUGHOUT3D920.928.71162430857495.140.112360.111570.12731RANDOM11.536
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]
-0.01
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free72.298
r_dihedral_angle_2_deg35.308
r_dihedral_angle_4_deg23.204
r_sphericity_bonded14.355
r_dihedral_angle_3_deg12.592
r_long_range_B_refined8.332
r_rigid_bond_restr7.509
r_dihedral_angle_1_deg6.882
r_long_range_B_other6.732
r_scangle_other4.902
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free72.298
r_dihedral_angle_2_deg35.308
r_dihedral_angle_4_deg23.204
r_sphericity_bonded14.355
r_dihedral_angle_3_deg12.592
r_long_range_B_refined8.332
r_rigid_bond_restr7.509
r_dihedral_angle_1_deg6.882
r_long_range_B_other6.732
r_scangle_other4.902
r_scbond_it3.968
r_scbond_other3.968
r_mcangle_other3.832
r_mcangle_it3.824
r_mcbond_other2.855
r_mcbond_it2.833
r_angle_refined_deg2.223
r_angle_other_deg2.182
r_chiral_restr0.135
r_bond_refined_d0.023
r_gen_planes_other0.013
r_gen_planes_refined0.012
r_bond_other_d0.001
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
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2049
Nucleic Acid Atoms
Solvent Atoms429
Heterogen Atoms13

Software

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