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An Information Portal to 105212 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4F0N
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 5.5
    Temperature 293.0
    Details 2 uL 0.1 M sodium phosphate, pH 5.5, 10% w/v PEG6000 + 2 uL 100 U/mL human insulin (Novolin R, lot # XS60393), cryoprotectant: mother liquor + 10% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 82.17 α = 90
    b = 82.17 β = 90
    c = 33.73 γ = 120
     
    Space Group
    Space Group Name:    H 3
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type MAR scanner 345 mm plate
    Collection Date 2009-12-17
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU ULTRAX 18
    Wavelength List 1.54179
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.68
    Resolution(Low) 41.08
    Number Reflections(All) 9605
    Number Reflections(Observed) 9605
    Percent Possible(Observed) 97.4
    Redundancy 5.6
     
    High Resolution Shell Details
    Resolution(High) 1.679
    Resolution(Low) 1.76
    Percent Possible(All) 86.1
    R Merge I(Observed) 0.344
    Mean I Over Sigma(Observed) 2.1
    R-Sym I(Observed) 0.344
    Redundancy 5.0
    Number Unique Reflections(All) 1244
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.679
    Resolution(Low) 41.08
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 9605
    Number of Reflections(R-Free) 462
    Percent Reflections(Observed) 99.29
    R-Factor(Observed) 0.2162
    R-Work 0.2137
    R-Free 0.2644
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 23.9974
    Anisotropic B[1][1] 0.12
    Anisotropic B[1][2] 0.06
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.12
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.18
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.679
    Shell Resolution(Low) 1.722
    Number of Reflections(R-Free) 26
    Number of Reflections(R-Work) 644
    R-Factor(R-Work) 0.221
    R-Factor(R-Free) 0.298
    Percent Reflections(Observed) 98.1
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.092
    r_scbond_it 2.037
    r_mcangle_it 1.383
    r_mcbond_other 0.241
    r_bond_refined_d 0.017
    r_bond_other_d 0.001
    r_angle_refined_deg 1.505
    r_angle_other_deg 0.981
    r_dihedral_angle_1_deg 7.214
    r_dihedral_angle_2_deg 31.498
    r_dihedral_angle_3_deg 12.306
    r_dihedral_angle_4_deg 8.551
    r_chiral_restr 0.095
    r_gen_planes_refined 0.006
    r_gen_planes_other 0.001
    r_mcbond_it 0.818
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 804
    Nucleic Acid Atoms 0
    Heterogen Atoms 4
    Solvent Atoms 142
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MAR345dtb
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.5.0102
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5 version: 5.5.0102
    molecular replacement Phaser version: 2.1.4
    data reduction SCALA version: 3.3.15
    data collection Mosflm