X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3QC3 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP3.5295Protein: 7.4 mG/mL, 0.5 M Sodium chloride, 0.01 M Tris-HCL buffer pH 8.3; Screen: Classics II (A1), 2M Ammonium sulfate, 0.1M Citric acid pH 3.5. , VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
3.0559.61

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 138.51α = 90
b = 138.51β = 90
c = 349.329γ = 120
Symmetry
Space GroupH 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-rayCCDMARMOSAIC 225 mm CCDBeryllium lenses2012-11-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-F0.97872APS21-ID-F

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
12.05301000.0720.07220.14.58101281012-332.6
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.052.091000.6150.6152.44.53999

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT3QC32.0529.887686576865405699.880.151260.151260.149410.18685RANDOM39.93
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]
0.120.060.12-0.39
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.956
r_dihedral_angle_4_deg19.199
r_dihedral_angle_3_deg11.142
r_long_range_B_refined7.956
r_long_range_B_other7.737
r_scangle_other4.703
r_scbond_it3.164
r_dihedral_angle_1_deg3.112
r_scbond_other2.997
r_mcangle_other2.732
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.956
r_dihedral_angle_4_deg19.199
r_dihedral_angle_3_deg11.142
r_long_range_B_refined7.956
r_long_range_B_other7.737
r_scangle_other4.703
r_scbond_it3.164
r_dihedral_angle_1_deg3.112
r_scbond_other2.997
r_mcangle_other2.732
r_mcangle_it2.73
r_mcbond_it1.834
r_mcbond_other1.833
r_angle_refined_deg1.434
r_angle_other_deg0.719
r_chiral_restr0.087
r_gen_planes_refined0.019
r_gen_planes_other0.017
r_bond_refined_d0.01
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6761
Nucleic Acid Atoms
Solvent Atoms513
Heterogen Atoms69

Software

Software
Software NamePurpose
Blu-Icedata collection
PHASERphasing
REFMACrefinement
HKL-3000data reduction
HKL-3000data scaling