X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4LTOPDB entry 4LTO

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.427730% PEG400, 20 mM MES, pH 5.4
Crystal Properties
Matthews coefficientSolvent content
6.3580.62

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 138.31α = 90
b = 153.35β = 90
c = 165.81γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray190CCDADSC QUANTUM 315r2013-05-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.3.11.1158ALS8.3.1

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
13.75099.860.1628.911419966

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 DIFFRACTIONMADTHROUGHOUTPDB entry 4LTO3.7151789495898.20.27980.278440.30409RANDOM299.182
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]
-8.76-4.7513.5
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.025
r_long_range_B_refined29.339
r_long_range_B_other29.336
r_dihedral_angle_3_deg21.44
r_mcangle_it14.147
r_mcangle_other14.145
r_dihedral_angle_4_deg14.144
r_scangle_other12.757
r_dihedral_angle_1_deg8.631
r_mcbond_it8.416
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.025
r_long_range_B_refined29.339
r_long_range_B_other29.336
r_dihedral_angle_3_deg21.44
r_mcangle_it14.147
r_mcangle_other14.145
r_dihedral_angle_4_deg14.144
r_scangle_other12.757
r_dihedral_angle_1_deg8.631
r_mcbond_it8.416
r_mcbond_other8.412
r_scbond_it7.241
r_scbond_other7.239
r_angle_other_deg3.805
r_angle_refined_deg1.429
r_chiral_restr0.076
r_bond_refined_d0.011
r_bond_other_d0.011
r_gen_planes_refined0.007
r_gen_planes_other0.006
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 Atoms3739
Nucleic Acid Atoms
Solvent Atoms3
Heterogen Atoms1

Software

Software
Software NamePurpose
REFMACrefinement
iMOSFLMdata reduction
SCALAdata scaling
PHASERphasing