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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
2XJK
  •   Crystallization Hide
    Crystallization Experiments
    pH 6
    Details 25% PEG 6000, 0.1M MES (PH 6.0), 0.01M ZNCL2
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 35.16 α = 90
    b = 49.48 β = 90
    c = 80.44 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARRESEARCH
    Collection Date 2007-12-13
     
    Diffraction Radiation
    Monochromator BENT SI (220) CRYSTAL
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type MAX II BEAMLINE I911-5
    Wavelength 0.9085
    Site MAX II
    Beamline I911-5
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.45
    Resolution(Low) 40
    Number Reflections(Observed) 25245
    Percent Possible(Observed) 98.6
    R Merge I(Observed) 0.07
    B(Isotropic) From Wilson Plot 16.5
    Redundancy 7.5
     
    High Resolution Shell Details
    Resolution(High) 1.45
    Resolution(Low) 1.49
    Percent Possible(All) 99.2
    R Merge I(Observed) 0.66
    Mean I Over Sigma(Observed) 2.8
    Redundancy 6.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.45
    Resolution(Low) 40.0
    Number of Reflections(Observed) 23963
    Number of Reflections(R-Free) 1282
    Percent Reflections(Observed) 98.58
    R-Factor(Observed) 0.16788
    R-Work 0.16615
    R-Free 0.19944
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 16.06
    Anisotropic B[1][1] -0.49
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.73
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.25
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.45
    Shell Resolution(Low) 1.488
    Number of Reflections(R-Free) 97
    Number of Reflections(R-Work) 1753
    R-Factor(R-Work) 0.267
    R-Factor(R-Free) 0.279
    Percent Reflections(Observed) 99.25
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_rigid_bond_restr 1.066
    r_scangle_it 3.743
    r_scbond_it 2.384
    r_mcangle_it 2.078
    r_mcbond_other 0.293
    r_mcbond_it 1.217
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.005
    r_chiral_restr 0.074
    r_dihedral_angle_4_deg 11.4
    r_dihedral_angle_3_deg 11.073
    r_dihedral_angle_2_deg 39.359
    r_dihedral_angle_1_deg 6.456
    r_angle_other_deg 0.842
    r_angle_refined_deg 1.201
    r_bond_other_d 0.001
    r_bond_refined_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1111
    Nucleic Acid Atoms 0
    Heterogen Atoms 5
    Solvent Atoms 153
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XDS
    Structure Solution PHASER
    Structure Refinement REFMAC 5.5.0109
     
    Software
    refinement REFMAC version: 5.5.0109
    model building PHASER