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An Information Portal to 105212 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4IK6
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.5
    Temperature 291.0
    Details 0.2M Calcium chloride, 0.1M HEPES sodium pH 7.5, 28% v/v Polyethylene glycol 400, VAPOR DIFFUSION, HANGING DROP, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 41.86 α = 90
    b = 83.22 β = 90
    c = 62.85 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MAR CCD 165 mm
    Collection Date 2008-09-16
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type LNLS BEAMLINE D03B-MX1
    Wavelength List 1.42500
    Site LNLS
    Beamline D03B-MX1
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2
    Resolution(Low) 83.33
    Number Reflections(All) 15410
    Number Reflections(Observed) 15410
    Percent Possible(Observed) 99.8
    R Merge I(Observed) 0.06
    Redundancy 3.3
     
    High Resolution Shell Details
    Resolution(High) 2.0
    Resolution(Low) 2.11
    Percent Possible(All) 99.9
    R Merge I(Observed) 0.328
    Mean I Over Sigma(Observed) 2.1
    R-Sym I(Observed) 0.328
    Redundancy 3.3
    Number Unique Reflections(All) 2200
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.0
    Resolution(Low) 21.51
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 15377
    Number of Reflections(R-Free) 766
    Percent Reflections(Observed) 99.61
    R-Factor(Observed) 0.1946
    R-Work 0.1923
    R-Free 0.2381
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 32.0996
    Anisotropic B[1][1] 1.27
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -1.57
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.29
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0
    Shell Resolution(Low) 2.052
    Number of Reflections(R-Free) 47
    Number of Reflections(R-Work) 1055
    R-Factor(R-Work) 0.232
    R-Factor(R-Free) 0.285
    Percent Reflections(Observed) 99.91
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.007
    r_chiral_restr 0.082
    r_dihedral_angle_4_deg 11.359
    r_dihedral_angle_3_deg 17.8
    r_dihedral_angle_2_deg 32.137
    r_dihedral_angle_1_deg 6.561
    r_angle_refined_deg 1.464
    r_bond_refined_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1785
    Nucleic Acid Atoms 0
    Heterogen Atoms 40
    Solvent Atoms 125
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MAR345dtb
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.7.0029
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5
    molecular replacement MOLREP
    data reduction SCALA version: 3.2.25
    data collection Mosflm