X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1JT6PDB entry 1jt6

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.62731:1 10mg/ml protein with 2.3M Ammonium sulfate with 100mM Sodium Acetate pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 273K
Crystal Properties
Matthews coefficientSolvent content
3.6966.64

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 170.226α = 90
b = 170.226β = 90
c = 93.577γ = 90
Symmetry
Space GroupP 42 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315Double Crystal Si(111)2003-10-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.2.11.0ALS8.2.1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
13.3182.061000.0798.97210542
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
3.313.491000.3242.017.2309

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 1jt63.3173.92199731997310811000.222060.222060.219240.27722RANDOM58.505
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]
-0.01-0.010.02
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.451
r_dihedral_angle_3_deg15.47
r_dihedral_angle_4_deg12.206
r_dihedral_angle_1_deg4.839
r_mcangle_it1.359
r_scangle_it1.264
r_angle_refined_deg0.823
r_scbond_it0.789
r_angle_other_deg0.765
r_mcbond_it0.729
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.451
r_dihedral_angle_3_deg15.47
r_dihedral_angle_4_deg12.206
r_dihedral_angle_1_deg4.839
r_mcangle_it1.359
r_scangle_it1.264
r_angle_refined_deg0.823
r_scbond_it0.789
r_angle_other_deg0.765
r_mcbond_it0.729
r_nbd_refined0.216
r_nbtor_refined0.191
r_nbd_other0.157
r_symmetry_vdw_other0.141
r_xyhbond_nbd_refined0.133
r_symmetry_vdw_refined0.128
r_symmetry_hbond_refined0.125
r_nbtor_other0.084
r_chiral_restr0.046
r_mcbond_other0.041
r_bond_refined_d0.006
r_gen_planes_refined0.002
r_bond_other_d0.001
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5772
Nucleic Acid Atoms
Solvent Atoms20
Heterogen Atoms144

Software

Software
Software NamePurpose
REFMACrefinement
BOSdata collection
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing