X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1Y1E 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8100 mM Tris, 2.4 M ammonium formate, 0.3% -octylglucoside, 3.2% 2-butanol, pH 8.0, VAPOR DIFFUSION, HANGING DROP
Crystal Properties
Matthews coefficientSolvent content
3.3963.71

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 142.444α = 90
b = 142.444β = 90
c = 217.067γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.2.2ALS8.2.2

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
12.120123276
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.12.17

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 REPLACEMENTTHROUGHOUT1Y1E2.120117425620383.350.201060.198950.24114RANDOM41.231
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]
2.371.192.37-3.56
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg25.921
r_dihedral_angle_4_deg20.617
r_dihedral_angle_3_deg13.894
r_dihedral_angle_1_deg5.905
r_sphericity_free2.348
r_scangle_it1.163
r_angle_refined_deg1.099
r_scbond_it0.797
r_sphericity_bonded0.571
r_rigid_bond_restr0.518
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg25.921
r_dihedral_angle_4_deg20.617
r_dihedral_angle_3_deg13.894
r_dihedral_angle_1_deg5.905
r_sphericity_free2.348
r_scangle_it1.163
r_angle_refined_deg1.099
r_scbond_it0.797
r_sphericity_bonded0.571
r_rigid_bond_restr0.518
r_mcangle_it0.422
r_nbtor_refined0.301
r_mcbond_it0.283
r_symmetry_hbond_refined0.216
r_nbd_refined0.186
r_xyhbond_nbd_refined0.153
r_symmetry_vdw_refined0.124
r_metal_ion_refined0.119
r_chiral_restr0.075
r_bond_refined_d0.008
r_gen_planes_refined0.003
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
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms11130
Nucleic Acid Atoms
Solvent Atoms976
Heterogen Atoms5

Software

Software
Software NamePurpose
REFMACrefinement