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An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1NE9
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 298.0
    Details PEG 6K, NaCl, sodium cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 42.03 α = 90
    b = 99.92 β = 116.02
    c = 45.84 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARRESEARCH
    Details two crystals monochromator
    Collection Date 2002-06-14
     
    Diffraction Radiation
    Monochromator mirror + double crystal + mirror
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE BM30A
    Wavelength List 0.97976
    Site ESRF
    Beamline BM30A
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.7
    Resolution(Low) 19.4
    Number Reflections(Observed) 36921
    Percent Possible(Observed) 98.8
    R Merge I(Observed) 0.051
    B(Isotropic) From Wilson Plot 14.8
    Redundancy 4.2
     
    High Resolution Shell Details
    Resolution(High) 1.7
    Resolution(Low) 1.79
    Percent Possible(All) 97.7
    R Merge I(Observed) 0.163
    Mean I Over Sigma(Observed) 3.7
    R-Sym I(Observed) 0.139
    Redundancy 3.7
    Number Unique Reflections(All) 5314
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 1.7
    Resolution(Low) 19.37
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 36767
    Number of Reflections(R-Free) 1833
    Percent Reflections(Observed) 98.4
    R-Factor(All) 0.189
    R-Factor(Observed) 0.176
    R-Work 0.176
    R-Free 0.209
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 18.2
    Anisotropic B[1][1] -0.53
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 2.77
    Anisotropic B[2][2] -1.54
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 2.07
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7
    Shell Resolution(Low) 1.81
    Number of Reflections(Observed) 5704
    Number of Reflections(R-Free) 300
    Number of Reflections(R-Work) 5704
    R-Factor(R-Work) 0.221
    R-Factor(R-Free) 0.258
    R-Free Error 0.015
    Percent Reflections(Observed) 96.7
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 3.13
    c_scbond_it 2.15
    c_mcangle_it 1.65
    c_mcbond_it 1.11
    c_improper_angle_d 0.78
    c_bond_d 0.005
    c_angle_deg 1.3
    c_dihedral_angle_d 23.2
     
    Coordinate Error
    Luzzati ESD(Observed) 0.16
    Luzzati Sigma A(Observed) 0.09
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.2
    Luzzati Sigma A(R-Free Set) 0.11
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2688
    Nucleic Acid Atoms 0
    Heterogen Atoms 3
    Solvent Atoms 490
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) CCP4 (SCALA)
    Structure Solution CNS
    Structure Refinement CNS 1.0
     
    Software
    refinement CNS version: 1.0
    model building CNS
    data reduction SCALA
    data collection MOSFLM