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An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1J3I
  •   Crystallization Hide
    Crystallization Experiments
    Method microbatch under oil
    pH 4.6
    Temperature 298.0
    Details PEG 4000, ammonium acetate, sodium acetate, pH 4.6, microbatch under oil, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 59.12 α = 90
    b = 157.25 β = 90
    c = 165.44 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 ADSC
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-1
    Wavelength List 0.934
    Site ESRF
    Beamline ID14-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.33
    Resolution(Low) 33
    Number Reflections(Observed) 64441
    Percent Possible(Observed) 97.9
    B(Isotropic) From Wilson Plot 36.2
    Redundancy 10.1
     
    High Resolution Shell Details
    Resolution(High) 2.33
    Resolution(Low) 2.43
    Percent Possible(All) 89.0
    R-Sym I(Observed) 0.313
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.33
    Resolution(Low) 29.4
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 66849
    Number of Reflections(Observed) 64375
    Number of Reflections(R-Free) 3211
    Percent Reflections(Observed) 96.7
    R-Factor(All) 0.187
    R-Factor(Observed) 0.187
    R-Work 0.185
    R-Free 0.236
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 49.1
    Anisotropic B[1][1] 12.25
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -5.16
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -7.09
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.33
    Shell Resolution(Low) 2.41
    Number of Reflections(R-Free) 242
    Number of Reflections(R-Work) 4547
    R-Factor(R-Work) 0.239
    R-Factor(R-Free) 0.297
    R-Free Error 0.019
    Percent Reflections(Observed) 72.9
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 3.1
    c_scbond_it 2.12
    c_mcangle_it 2.55
    c_mcbond_it 1.52
    c_improper_angle_d 1.54
    c_bond_d 0.013
    c_angle_deg 1.9
    c_dihedral_angle_d 23.4
     
    Coordinate Error
    Luzzati ESD(Observed) 0.24
    Luzzati Sigma A(Observed) 0.2
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.31
    Luzzati Sigma A(R-Free Set) 0.28
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 9163
    Nucleic Acid Atoms 0
    Heterogen Atoms 184
    Solvent Atoms 788
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution AMORE
    Structure Refinement CNS 1.1
     
    Software
    refinement CNS version: 1.1