X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4J4Q 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP277contained 2.8-3.4 M ammonium sulfate in 0.05-0.1 M NaAcO buffer, pH 5.2-5.6
Crystal Properties
Matthews coefficientSolvent content
84.84

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 242.66α = 90
b = 242.66β = 90
c = 111.77γ = 120
Symmetry
Space GroupH 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M-F2014-02-27MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 24-ID-C0.97890APS24-ID-C

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.75010020.922.834545

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 DIFFRACTIONFOURIER SYNTHESISTHROUGHOUT4J4Q2.749.3432815172599.950.245410.244960.25378RANDOM94.944
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]
-3.82-1.91-3.8212.38
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.25
r_dihedral_angle_3_deg12.665
r_dihedral_angle_4_deg11.276
r_long_range_B_refined7.181
r_long_range_B_other7.18
r_dihedral_angle_1_deg4.492
r_scangle_other3.976
r_mcangle_it3.692
r_mcangle_other3.691
r_scbond_it2.342
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.25
r_dihedral_angle_3_deg12.665
r_dihedral_angle_4_deg11.276
r_long_range_B_refined7.181
r_long_range_B_other7.18
r_dihedral_angle_1_deg4.492
r_scangle_other3.976
r_mcangle_it3.692
r_mcangle_other3.691
r_scbond_it2.342
r_scbond_other2.342
r_mcbond_it2.194
r_mcbond_other2.19
r_angle_refined_deg0.866
r_angle_other_deg0.697
r_chiral_restr0.047
r_bond_refined_d0.004
r_gen_planes_refined0.003
r_bond_other_d0.001
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 Atoms2592
Nucleic Acid Atoms
Solvent Atoms32
Heterogen Atoms154

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
REFMACphasing