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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3DNV
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Details tascimate, pH 7.0, VAPOR DIFFUSION, HANGING DROP
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 166.34 α = 90
    b = 166.34 β = 90
    c = 62.09 γ = 90
     
    Space Group
    Space Group Name:    P 4 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
    Collection Date 2007-04-12
     
    Diffraction Radiation
    Monochromator graphite
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 8.2.1
    Wavelength List 1.03
    Site ALS
    Beamline 8.2.1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.68
    Resolution(Low) 74.3
    Number Reflections(All) 25017
    Number Reflections(Observed) 25010
    Percent Possible(Observed) 99.9
    B(Isotropic) From Wilson Plot 64.3
    Redundancy 5.0
     
    High Resolution Shell Details
    Resolution(High) 2.68
    Resolution(Low) 2.85
    Percent Possible(All) 99.9
    R Merge I(Observed) 0.383
    Mean I Over Sigma(Observed) 2.0
    Redundancy 3.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.68
    Resolution(Low) 58.17
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 0
    Number of Reflections(Observed) 25010
    Number of Reflections(R-Free) 2476
    Percent Reflections(Observed) 99.5
    R-Factor(Observed) 0.228
    R-Work 0.228
    R-Free 0.285
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 59.0
    Anisotropic B[1][1] 12.43
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 12.43
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -24.85
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.68
    Shell Resolution(Low) 2.85
    Number of Reflections(R-Free) 383
    Number of Reflections(R-Work) 3680
    R-Factor(R-Work) 0.327
    R-Factor(R-Free) 0.376
    R-Free Error 0.019
    Percent Reflections(Observed) 99.1
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 0.98
    c_dihedral_angle_d 21.8
    c_angle_deg 1.2
    c_bond_d 0.007
     
    Coordinate Error
    Luzzati ESD(Observed) 0.34
    Luzzati Sigma A(Observed) 0.42
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.44
    Luzzati Sigma A(R-Free Set) 0.52
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3838
    Nucleic Acid Atoms 428
    Heterogen Atoms 40
    Solvent Atoms 34
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution molrep
    Structure Refinement CNS 1.1
     
    Software
    refinement CNS version: 1.1