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X-RAY DIFFRACTION
Materials and Methods page
3EYL
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION
    pH 5.5
    Temperature 293.0
    Details Mg formate, pH 5.5, VAPOR DIFFUSION, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 170.42 α = 90
    b = 170.42 β = 90
    c = 170.42 γ = 90
     
    Space Group
    Space Group Name:    I 41 3 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Collection Date 2008-04-18
     
    Diffraction Radiation
    Monochromator Channel-cut double-crystal silicon [111] crystal (5.2-20 keV)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID23-1
    Wavelength List 1.013
    Site ESRF
    Beamline ID23-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 3
    Resolution(Low) 40
    Number Reflections(Observed) 8740
    Percent Possible(Observed) 99.7
    R Merge I(Observed) 0.092
    Redundancy 11.6
     
    High Resolution Shell Details
    Resolution(High) 3.0
    Resolution(Low) 3.16
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.667
    Mean I Over Sigma(Observed) 3.7
    Redundancy 12.0
    Number Unique Reflections(All) 1253
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 3.0
    Resolution(Low) 38.11
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 8740
    Number of Reflections(Observed) 8303
    Number of Reflections(R-Free) 414
    Percent Reflections(Observed) 99.45
    R-Factor(Observed) 0.19111
    R-Work 0.1888
    R-Free 0.23877
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 50.602
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0
    Shell Resolution(Low) 3.079
    Number of Reflections(R-Free) 30
    Number of Reflections(R-Work) 600
    R-Factor(R-Work) 0.265
    R-Factor(R-Free) 0.348
    R-Free Error 0.238
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 5.065
    r_scbond_it 3.101
    r_mcangle_it 2.326
    r_mcbond_it 1.299
    r_symmetry_hbond_refined 0.248
    r_bond_refined_d 0.007
    r_angle_refined_deg 1.066
    r_dihedral_angle_1_deg 4.647
    r_dihedral_angle_2_deg 34.586
    r_dihedral_angle_3_deg 19.616
    r_dihedral_angle_4_deg 17.366
    r_chiral_restr 0.087
    r_gen_planes_refined 0.003
    r_nbd_refined 0.204
    r_nbtor_refined 0.308
    r_xyhbond_nbd_refined 0.15
    r_symmetry_vdw_refined 0.179
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1638
    Nucleic Acid Atoms 0
    Heterogen Atoms 76
    Solvent Atoms 3
     
     
  •   Software and Computing Hide
    Computing
    Data Collection DNA
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution Molrep
    Structure Refinement REFMAC 5.2.0019
     
    Software
    refinement REFMAC version: 5.2.0019
    model building Molrep
    data collection DNA