X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION8.52772.7 M ammonium sulfate, 20 mM Tris, 1 mM EDTA, pH 8.5, VAPOR DIFFUSION, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
3.160.29

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 90.304α = 90
b = 90.304β = 90
c = 45.314γ = 120
Symmetry
Space GroupP 6

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-D1.00000APS21-ID-D

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
11.24124.7698.60.05836.15.8589651
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)
11.2411.27390.40.2092.13753

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 REPLACEMENTTHROUGHOUT3OCK1.24124.7655979298398.760.119690.118540.14123RANDOM11.499
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]
0.080.080.08-0.25
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free52.813
r_dihedral_angle_2_deg36.66
r_dihedral_angle_3_deg13.116
r_sphericity_bonded9.93
r_rigid_bond_restr8.353
r_dihedral_angle_4_deg5.437
r_dihedral_angle_1_deg5.192
r_long_range_B_refined4.706
r_long_range_B_other3.202
r_angle_refined_deg2.77
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free52.813
r_dihedral_angle_2_deg36.66
r_dihedral_angle_3_deg13.116
r_sphericity_bonded9.93
r_rigid_bond_restr8.353
r_dihedral_angle_4_deg5.437
r_dihedral_angle_1_deg5.192
r_long_range_B_refined4.706
r_long_range_B_other3.202
r_angle_refined_deg2.77
r_scangle_other2.334
r_scbond_it2.27
r_scbond_other2.255
r_mcangle_it1.814
r_mcangle_other1.814
r_mcbond_it1.347
r_mcbond_other1.347
r_angle_other_deg1.152
r_chiral_restr0.19
r_bond_refined_d0.028
r_gen_planes_refined0.014
r_gen_planes_other0.01
r_bond_other_d0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1216
Nucleic Acid Atoms
Solvent Atoms311
Heterogen Atoms75

Software

Software
Software NamePurpose
AMoREphasing
REFMACrefinement
HKL-3000data reduction
SCALEPACKdata scaling