X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1PPJPDB ENTRY 1PPJ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.850 MM POTASSIUM PHOSPHATE BUFFER PH 6.8, 12% P4000, 1.4% HECAMEG
Crystal Properties
Matthews coefficientSolvent content
1.9738.01

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 129.896α = 90
b = 129.896β = 90
c = 722.152γ = 120
Symmetry
Space GroupP 65

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6MMIRRORS2013-10-27MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I03DiamondI03

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
13.5642.11000.247881351
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.553.681000.91.47.8

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 REPLACEMENTTHROUGHOUTPDB ENTRY 1PPJ3.575077417395399.840.20830.2060.25156RANDOM133.886
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]
1.370.691.37-4.45
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.383
r_dihedral_angle_3_deg18.625
r_dihedral_angle_4_deg17.817
r_mcangle_it12.521
r_mcbond_it8.02
r_mcbond_other8.02
r_scbond_it7.567
r_dihedral_angle_1_deg6.467
r_angle_other_deg3.635
r_angle_refined_deg1.595
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.383
r_dihedral_angle_3_deg18.625
r_dihedral_angle_4_deg17.817
r_mcangle_it12.521
r_mcbond_it8.02
r_mcbond_other8.02
r_scbond_it7.567
r_dihedral_angle_1_deg6.467
r_angle_other_deg3.635
r_angle_refined_deg1.595
r_chiral_restr0.081
r_gen_planes_other0.011
r_bond_refined_d0.01
r_gen_planes_refined0.006
r_bond_other_d
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_mcangle_other
r_scbond_other
r_scangle_it
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms30326
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms725

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing