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X-RAY DIFFRACTION
Materials and Methods page
4EYD
  •   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 (Insunorm R, lot # I 550005), cryoprotectant: mother liquor + 10% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 80.83 α = 90
    b = 80.83 β = 90
    c = 33.16 γ = 120
     
    Space Group
    Space Group Name:    H 3
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 293
     
    Diffraction Detector
    Detector CCD
    Type MAR CCD 165 mm
     
    Diffraction Radiation
    Monochromator Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type LNLS BEAMLINE D03B-MX1
    Site LNLS
    Beamline D03B-MX1
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.47
    Resolution(Low) 40.42
    Number Reflections(All) 13635
    Number Reflections(Observed) 13635
    Percent Possible(Observed) 99.3
    Redundancy 6.0
     
    High Resolution Shell Details
    Resolution(High) 1.471
    Resolution(Low) 1.55
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.275
    Mean I Over Sigma(Observed) 2.4
    R-Sym I(Observed) 0.275
    Redundancy 5.7
    Number Unique Reflections(All) 2005
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.471
    Resolution(Low) 40.41
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 13635
    Number of Reflections(R-Free) 683
    Percent Reflections(Observed) 99.34
    R-Factor(Observed) 0.1563
    R-Work 0.1529
    R-Free 0.2231
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 23.3077
    Anisotropic B[1][1] 0.18
    Anisotropic B[1][2] 0.09
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.18
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.27
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.471
    Shell Resolution(Low) 1.509
    Number of Reflections(R-Free) 61
    Number of Reflections(R-Work) 968
    R-Factor(R-Work) 0.174
    R-Factor(R-Free) 0.249
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_rigid_bond_restr 1.681
    r_scangle_it 5.677
    r_scbond_it 3.94
    r_mcangle_it 2.571
    r_mcbond_other 0.579
    r_bond_refined_d 0.02
    r_bond_other_d 0.002
    r_angle_refined_deg 1.8
    r_angle_other_deg 1.136
    r_dihedral_angle_1_deg 6.56
    r_dihedral_angle_2_deg 32.049
    r_dihedral_angle_3_deg 12.28
    r_dihedral_angle_4_deg 4.291
    r_chiral_restr 0.292
    r_gen_planes_refined 0.008
    r_gen_planes_other 0.001
    r_mcbond_it 1.685
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 808
    Nucleic Acid Atoms 0
    Heterogen Atoms 4
    Solvent Atoms 127
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Marresearch
    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