X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2770.2 M magnesium chloride, 25 % (w/v) PEG 3350
Crystal Properties
Matthews coefficientSolvent content
2.6152.92

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 84.99α = 90
b = 143.85β = 116.33
c = 89.46γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 2M2012-09-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06DA1.0SLSX06DA

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
11.8333.6699.80.084103.6168813
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)
11.831.860.815

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 REPLACEMENTTHROUGHOUT3GLS1.8333.66160291847999.80.176350.174940.20316RANDOM24.762
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]
-0.02-0.12-0.090.15
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.949
r_dihedral_angle_4_deg14.013
r_dihedral_angle_3_deg13.105
r_dihedral_angle_1_deg5.38
r_long_range_B_refined5.369
r_long_range_B_other5.201
r_scangle_other2.427
r_mcangle_it1.791
r_mcangle_other1.791
r_scbond_it1.454
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.949
r_dihedral_angle_4_deg14.013
r_dihedral_angle_3_deg13.105
r_dihedral_angle_1_deg5.38
r_long_range_B_refined5.369
r_long_range_B_other5.201
r_scangle_other2.427
r_mcangle_it1.791
r_mcangle_other1.791
r_scbond_it1.454
r_scbond_other1.454
r_angle_refined_deg1.336
r_mcbond_it1.063
r_mcbond_other1.063
r_angle_other_deg0.816
r_chiral_restr0.077
r_bond_refined_d0.008
r_gen_planes_refined0.006
r_bond_other_d0.002
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms12775
Nucleic Acid Atoms
Solvent Atoms1257
Heterogen Atoms94

Software

Software
Software NamePurpose
REFMACrefinement
MOLREPphasing
Aimlessdata scaling
XDSdata reduction