X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.92930.1M BIS-TRIS PH 6.9, 25% PEG 3350, 0.2M LiSO4 , VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.9658.38

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.966α = 90
b = 75.477β = 90
c = 88.405γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMAR scanner 345 mm plate2012-05-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODECu FINE FOCUS1.5418

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
12.852099.70.1267.46.710553
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)
12.852.999.80.4946.3520

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 REPLACEMENTTHROUGHOUT3w5x2.8519.891045050298.560.22520.2230.2696RANDOM23.6775
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]
-3.076.02-2.95
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.808
r_dihedral_angle_3_deg20.468
r_dihedral_angle_4_deg19.036
r_dihedral_angle_1_deg7.718
r_scangle_it2.814
r_angle_refined_deg1.695
r_scbond_it1.58
r_mcangle_it1.417
r_angle_other_deg1.097
r_mcbond_it0.743
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.808
r_dihedral_angle_3_deg20.468
r_dihedral_angle_4_deg19.036
r_dihedral_angle_1_deg7.718
r_scangle_it2.814
r_angle_refined_deg1.695
r_scbond_it1.58
r_mcangle_it1.417
r_angle_other_deg1.097
r_mcbond_it0.743
r_mcbond_other0.128
r_chiral_restr0.088
r_bond_refined_d0.017
r_gen_planes_refined0.006
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2488
Nucleic Acid Atoms
Solvent Atoms38
Heterogen Atoms48

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction