X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1LS6pdb entry 1LS6

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION8.5293Tris, Polyethylene glycol 3.350, pH 8.5, VAPOR DIFFUSION, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.4549.86

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 72.176α = 90
b = 81.273β = 90
c = 121.76γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMAR scanner 345 mm plate2009-11-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RUH3R1.54

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
12.362294.80.08911.15.528872
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)
12.362.457.40.4623.8872

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 REPLACEMENTTHROUGHOUTpdb entry 1LS62.362228688145695.260.2170.21420.2705RANDOM44.1194
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]
-2.464.22-1.77
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.949
r_dihedral_angle_4_deg22.026
r_dihedral_angle_3_deg17.714
r_dihedral_angle_1_deg6.383
r_scangle_it3.411
r_scbond_it2.263
r_angle_refined_deg1.675
r_mcangle_it1.484
r_angle_other_deg0.956
r_mcbond_it0.806
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.949
r_dihedral_angle_4_deg22.026
r_dihedral_angle_3_deg17.714
r_dihedral_angle_1_deg6.383
r_scangle_it3.411
r_scbond_it2.263
r_angle_refined_deg1.675
r_mcangle_it1.484
r_angle_other_deg0.956
r_mcbond_it0.806
r_mcbond_other0.177
r_chiral_restr0.093
r_bond_refined_d0.019
r_gen_planes_refined0.008
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4709
Nucleic Acid Atoms
Solvent Atoms113
Heterogen Atoms76

Software

Software
Software NamePurpose
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction