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X-RAY DIFFRACTION
Materials and Methods page
4IJT
  •   Crystallization Hide
    Crystallization Experiments
    Method Vapor diffusion, hanging drop
    pH 6.1
    Temperature 293.0
    Details 1:1.5 PROTEIN/DNA RATIO, 20% PEG 3350, 0.2M KCl, pH 6.1, Vapor diffusion, hanging drop, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 74.94 α = 90
    b = 74.94 β = 90
    c = 73.31 γ = 120
     
    Space Group
    Space Group Name:    P 61
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4r
    Details TOROIDAL MIRROR
    Collection Date 2006-04-27
     
    Diffraction Radiation
    Monochromator DIAMOND (111), GE(220)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-3
    Wavelength List 0.9310
    Site ESRF
    Beamline ID14-3
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.78
    Resolution(Low) 27
    Number Reflections(Observed) 22336
    Percent Possible(Observed) 99.7
    R Merge I(Observed) 0.141
    Redundancy 5.1
     
    High Resolution Shell Details
    Resolution(High) 1.78
    Resolution(Low) 1.81
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.529
    Redundancy 5.3
    Number Unique Reflections(All) 1116
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.78
    Resolution(Low) 24.529
    Cut-off Sigma(F) 1.37
    Number of Reflections(all) 22322
    Number of Reflections(Observed) 22322
    Number of Reflections(R-Free) 1107
    Percent Reflections(Observed) 99.69
    R-Factor(Observed) 0.1632
    R-Work 0.1616
    R-Free 0.1937
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 17.3819
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.78
    Shell Resolution(Low) 1.8626
    Number of Reflections(R-Free) 133
    Number of Reflections(R-Work) 2615
    R-Factor(R-Work) 0.1999
    R-Factor(R-Free) 0.272
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8626
    Shell Resolution(Low) 1.9608
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 2651
    R-Factor(R-Work) 0.1831
    R-Factor(R-Free) 0.2259
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9608
    Shell Resolution(Low) 2.0836
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2666
    R-Factor(R-Work) 0.1685
    R-Factor(R-Free) 0.2183
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0836
    Shell Resolution(Low) 2.2444
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2631
    R-Factor(R-Work) 0.1619
    R-Factor(R-Free) 0.2026
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2444
    Shell Resolution(Low) 2.47
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2652
    R-Factor(R-Work) 0.1681
    R-Factor(R-Free) 0.2028
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.47
    Shell Resolution(Low) 2.827
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2670
    R-Factor(R-Work) 0.1776
    R-Factor(R-Free) 0.2148
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.827
    Shell Resolution(Low) 3.56
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 2661
    R-Factor(R-Work) 0.1525
    R-Factor(R-Free) 0.1855
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.56
    Shell Resolution(Low) 24.5312
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 2669
    R-Factor(R-Work) 0.1388
    R-Factor(R-Free) 0.148
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 12.843
    f_plane_restr 0.006
    f_chiral_restr 0.094
    f_angle_d 1.33
    f_bond_d 0.011
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1529
    Nucleic Acid Atoms 0
    Heterogen Atoms 22
    Solvent Atoms 259
     
     
  •   Software and Computing Hide
    Computing
    Data Collection DNA
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution PHASER
    Structure Refinement PHENIX (phenix.refine: dev_1223)
     
    Software
    data extraction pdb_extract version: 3.11
    refinement phenix
    molecular replacement Phaser
    data reduction HKL