POP-OUT | CLOSE

An Information Portal to 105212 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
2AKA
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8
    Temperature 277.0
    Details Tris, PEG 8000, MPD, DTT, magnesium chloride, pH 8.00, VAPOR DIFFUSION, HANGING DROP, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 57.42 α = 90
    b = 126.99 β = 90
    c = 160.81 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 ADSC QUANTUM 4
    Collection Date 2002-09-14
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-4
    Wavelength 0.93927
    Wavelength List 0.93927
    Site ESRF
    Beamline ID14-4
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.9
    Resolution(Low) 20
    Number Reflections(Observed) 92665
    Percent Possible(Observed) 99.1
    R Merge I(Observed) 0.098
    B(Isotropic) From Wilson Plot 19.3
     
    High Resolution Shell Details
    Resolution(High) 1.9
    Resolution(Low) 2.0
    Percent Possible(All) 94.9
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SIRAS
    reflnsShellList 1.9
    Resolution(Low) 19.93
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 92658
    Number of Reflections(R-Free) 2317
    Percent Reflections(Observed) 99.1
    R-Factor(Observed) 0.185
    R-Work 0.185
    R-Free 0.224
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 31.6
    Anisotropic B[1][1] 8.8
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -6.71
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -2.08
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9
    Shell Resolution(Low) 2.02
    Number of Reflections(R-Free) 367
    Number of Reflections(R-Work) 14287
    R-Factor(R-Work) 0.194
    R-Factor(R-Free) 0.248
    R-Free Error 0.013
    Percent Reflections(Observed) 95.6
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 1.13
    c_dihedral_angle_d 23.3
    c_angle_deg 1.7
    c_bond_d 0.017
     
    Coordinate Error
    Luzzati ESD(Observed) 0.19
    Luzzati Sigma A(Observed) 0.07
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.24
    Luzzati Sigma A(R-Free Set) 0.12
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 8519
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 754
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) CAD4
    Data Reduction (data scaling) XDS
    Structure Solution CNS
    Structure Refinement CNS 1.1
     
    Software
    refinement CNS version: 1.1
    model building CNS
    data reduction XDS
    data collection CAD4