X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP29330% PEG MME 2000, 0.1M sodium thiocyanate
Crystal Properties
Matthews coefficientSolvent content
1.9938.17

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 66.151α = 83.69
b = 66.613β = 64.36
c = 76.377γ = 74.65
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 2M2013-01-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SA1.000SLSX10SA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)CC (Half)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
11.5457.984.50.0720.1020.9965.821.73142642-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.541.6377.20.8371.180.3810.71.59

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 REPLACEMENTTHROUGHOUT1dsu249.2363676335187.510.22160.21980.2555RANDOM21.421
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]
-0.01-0.130.040.140.05-0.13
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.69
r_dihedral_angle_4_deg17.992
r_dihedral_angle_3_deg14.914
r_mcangle_it4.126
r_mcbond_it3.31
r_dihedral_angle_1_deg3.233
r_mcbond_other3.231
r_angle_other_deg2.484
r_angle_refined_deg1.904
r_chiral_restr0.147
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.69
r_dihedral_angle_4_deg17.992
r_dihedral_angle_3_deg14.914
r_mcangle_it4.126
r_mcbond_it3.31
r_dihedral_angle_1_deg3.233
r_mcbond_other3.231
r_angle_other_deg2.484
r_angle_refined_deg1.904
r_chiral_restr0.147
r_bond_other_d0.035
r_bond_refined_d0.016
r_gen_planes_other0.009
r_gen_planes_refined0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms10266
Nucleic Acid Atoms
Solvent Atoms320
Heterogen Atoms168

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
XSCALEdata scaling
PHASERphasing
BUSTERrefinement