X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.829330% glycerol, 2.4M Ammonium sulfate, PH4.8, 0.1M Acetate, 40mM UDAO, 20.8mM DDAO
Crystal Properties
Matthews coefficientSolvent content
3.4564.34

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 90.891α = 90
b = 90.891β = 90
c = 123.348γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX-2252015-05-11MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRF BEAMLINE BL19U10.987SSRFBL19U1

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
11.5841.1299.771.4113.276331
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.821.8799.40.9777.07

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 REPLACEMENTTHROUGHOUT4JTU1.5841.1276331403899.770.170320.16950.18583RANDOM28.425
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]
0.020.020.02-0.06
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.1
r_dihedral_angle_4_deg20.465
r_dihedral_angle_3_deg12.931
r_long_range_B_other7.203
r_long_range_B_refined7.198
r_scangle_other6.454
r_dihedral_angle_1_deg6.289
r_scbond_it4.532
r_scbond_other4.531
r_mcangle_it3.467
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.1
r_dihedral_angle_4_deg20.465
r_dihedral_angle_3_deg12.931
r_long_range_B_other7.203
r_long_range_B_refined7.198
r_scangle_other6.454
r_dihedral_angle_1_deg6.289
r_scbond_it4.532
r_scbond_other4.531
r_mcangle_it3.467
r_mcangle_other3.467
r_angle_refined_deg2.809
r_mcbond_it2.679
r_mcbond_other2.55
r_angle_other_deg1.141
r_chiral_restr0.195
r_bond_refined_d0.03
r_gen_planes_refined0.015
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 Atoms2773
Nucleic Acid Atoms
Solvent Atoms145
Heterogen Atoms88

Software

Software
Software NamePurpose
REFMACrefinement
CrysalisProdata reduction
HKL-3000data scaling
PHENIXphasing