X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3W5X 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.20.1M MES pH 5.2, 20% PEG 4000, 0.15M AmSO4 , VAPOR DIFFUSION, SITTING DROP, temperature 100K
Crystal Properties
Matthews coefficientSolvent content
1.9236.02

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 36.294α = 90
b = 94.794β = 90
c = 53.39γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2012-09-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-20.873ESRFID23-2

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
11.665099.80.03816.68.811245
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)
11.661.691000.5318.4545

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 REPLACEMENTTHROUGHOUT3W5X1.6647.41123053799.520.19310.19140.2295RANDOM29.4623
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]
1.81-0.96-0.85
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.04
r_dihedral_angle_4_deg19.493
r_dihedral_angle_3_deg18.41
r_dihedral_angle_1_deg6.601
r_scangle_it6.417
r_scbond_it4.151
r_mcangle_it2.441
r_angle_refined_deg1.885
r_mcbond_it1.393
r_angle_other_deg1.008
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.04
r_dihedral_angle_4_deg19.493
r_dihedral_angle_3_deg18.41
r_dihedral_angle_1_deg6.601
r_scangle_it6.417
r_scbond_it4.151
r_mcangle_it2.441
r_angle_refined_deg1.885
r_mcbond_it1.393
r_angle_other_deg1.008
r_mcbond_other0.463
r_chiral_restr0.12
r_bond_refined_d0.025
r_gen_planes_refined0.009
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms623
Nucleic Acid Atoms
Solvent Atoms55
Heterogen Atoms11

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction