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An Information Portal to 105212 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3ZIM
  •   Crystallization Hide
    Crystallization Experiments
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 59.34 α = 90
    b = 135.03 β = 90
    c = 142.92 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 PIXEL (PILATUS 6M)
    Type DECTRIS
    Collection Date 2011-06-22
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SLS BEAMLINE X06SA
    Wavelength 1.00002
    Site SLS
    Beamline X06SA
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.85
    Resolution(Low) 98.15
    Number Reflections(Observed) 27581
    Percent Possible(Observed) 99.8
    R Merge I(Observed) 0.04
    B(Isotropic) From Wilson Plot 97.901
    Redundancy 5.9
     
    High Resolution Shell Details
    Resolution(High) 2.85
    Resolution(Low) 3.04
    Percent Possible(All) 99.3
    R Merge I(Observed) 0.43
    Mean I Over Sigma(Observed) 1.8
    Redundancy 5.7
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.85
    Resolution(Low) 98.15
    Number of Reflections(Observed) 26820
    Number of Reflections(R-Free) 719
    Percent Reflections(Observed) 99.85
    R-Factor(Observed) 0.21434
    R-Work 0.21272
    R-Free 0.27822
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 105.053
    Anisotropic B[1][1] -0.35
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.52
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.17
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.85
    Shell Resolution(Low) 2.924
    Number of Reflections(R-Free) 55
    Number of Reflections(R-Work) 1751
    R-Factor(R-Work) 0.337
    R-Factor(R-Free) 0.429
    Percent Reflections(Observed) 99.89
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.004
    r_chiral_restr 0.062
    r_dihedral_angle_4_deg 14.874
    r_dihedral_angle_3_deg 13.273
    r_dihedral_angle_2_deg 35.424
    r_dihedral_angle_1_deg 5.696
    r_angle_other_deg 0.989
    r_angle_refined_deg 1.118
    r_bond_other_d 0.001
    r_bond_refined_d 0.008
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 7238
    Nucleic Acid Atoms 0
    Heterogen Atoms 41
    Solvent Atoms 7
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) SCALA
    Structure Solution REFMAC5 RIGID BODY
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building REFMAC5 version: RIGID BODY