X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP3.52983.3 M NaCl, 0.1 M citric acid pH3.5, (Soaked in pH 5.5)
Crystal Properties
Matthews coefficientSolvent content
3.2462.07

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 125.29α = 90
b = 125.29β = 90
c = 125.29γ = 90
Symmetry
Space GroupP 41 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M-F2016-02-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID30B0.96862ESRFID30B

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.48501000.133124.7237.5956345-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rrim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.481.521003.240.57725.33

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 REPLACEMENTTHROUGHOUT5ACH1.485053456286099.990.125660.123170.17043RANDOM26.077
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.904
r_sphericity_bonded19.842
r_dihedral_angle_4_deg11.282
r_dihedral_angle_3_deg9.671
r_long_range_B_refined8.525
r_long_range_B_other8.524
r_rigid_bond_restr7.924
r_dihedral_angle_1_deg6.566
r_scangle_other6.499
r_scbond_it5.617
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.904
r_sphericity_bonded19.842
r_dihedral_angle_4_deg11.282
r_dihedral_angle_3_deg9.671
r_long_range_B_refined8.525
r_long_range_B_other8.524
r_rigid_bond_restr7.924
r_dihedral_angle_1_deg6.566
r_scangle_other6.499
r_scbond_it5.617
r_scbond_other5.617
r_mcangle_it4.842
r_mcangle_other4.841
r_mcbond_it4.439
r_mcbond_other4.386
r_angle_refined_deg2.337
r_angle_other_deg1.206
r_chiral_restr0.144
r_bond_refined_d0.026
r_gen_planes_refined0.013
r_bond_other_d0.004
r_gen_planes_other0.003
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_sphericity_free
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1788
Nucleic Acid Atoms
Solvent Atoms601
Heterogen Atoms168

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
REFMACphasing