X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6EH4 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7291Pact Premier solution A04: 0.1 M SPG Buffer, pH 7.0, 25% PEG w/v 1500
Crystal Properties
Matthews coefficientSolvent content
2.2846.16

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 43.06α = 90
b = 81.38β = 90.07
c = 64.79γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 6M2013-03-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04-1.92DiamondI04-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)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
11.3550.6997.80.0480.0560.99813.93.895658
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.351.38592.50.4960.5870.7523.5

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 REPLACEMENTTHROUGHOUT6EH41.3550.6990837479397.770.166620.164980.19744RANDOM21.011
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]
0.06-0.180.3-0.36
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.805
r_dihedral_angle_4_deg14.232
r_dihedral_angle_3_deg13.192
r_long_range_B_refined7.564
r_long_range_B_other7.564
r_dihedral_angle_1_deg6.842
r_scangle_other3.031
r_angle_refined_deg2.341
r_scbond_other2.327
r_scbond_it2.326
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.805
r_dihedral_angle_4_deg14.232
r_dihedral_angle_3_deg13.192
r_long_range_B_refined7.564
r_long_range_B_other7.564
r_dihedral_angle_1_deg6.842
r_scangle_other3.031
r_angle_refined_deg2.341
r_scbond_other2.327
r_scbond_it2.326
r_mcangle_other1.93
r_mcangle_it1.923
r_mcbond_it1.237
r_mcbond_other1.221
r_angle_other_deg1.046
r_chiral_restr0.136
r_bond_refined_d0.023
r_gen_planes_refined0.013
r_bond_other_d0.002
r_gen_planes_other0.002
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 Atoms3497
Nucleic Acid Atoms
Solvent Atoms486
Heterogen Atoms170

Software

Software
Software NamePurpose
REFMACrefinement
xia2data reduction
SCALAdata scaling
XDSdata reduction
PHASERphasing