X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5HKK 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1MICROBATCH6.6295PEG 4600, Bis-Tris, Tris-HCl, glycerol, MgCl2, ADP, NaCl
Crystal Properties
Matthews coefficientSolvent content
2.7755.52

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 148.24α = 90
b = 131.29β = 108.2
c = 212.01γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2012-11-07MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-20.87260ESRFID23-2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)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
12.6201.493.90.0560.99410.11.7220174
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)
12.62.6487.20.2731.6

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 REPLACEMENTTHROUGHOUT5HKK2.6201.42090851106692.90.21380.21260.2376RANDOM36.537
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]
-1.280.71-0.911.42
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.592
r_dihedral_angle_4_deg12.307
r_dihedral_angle_3_deg11.625
r_dihedral_angle_1_deg5
r_mcangle_it1.113
r_angle_refined_deg1.057
r_angle_other_deg0.845
r_mcbond_it0.6
r_mcbond_other0.6
r_chiral_restr0.056
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.592
r_dihedral_angle_4_deg12.307
r_dihedral_angle_3_deg11.625
r_dihedral_angle_1_deg5
r_mcangle_it1.113
r_angle_refined_deg1.057
r_angle_other_deg0.845
r_mcbond_it0.6
r_mcbond_other0.6
r_chiral_restr0.056
r_bond_refined_d0.007
r_gen_planes_refined0.003
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms49468
Nucleic Acid Atoms
Solvent Atoms1111
Heterogen Atoms440

Software

Software
Software NamePurpose
MOSFLMdata reduction
Aimlessdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
PHASERphasing