POP-OUT | CLOSE

An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4EWW
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 5.5
    Temperature 293.0
    Details 0.1 M sodium phosphate, pH 5.5, 10% w/v PEG6000, cryoprotectant: mother liquor + 10% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 80.91 α = 90
    b = 80.91 β = 90
    c = 33.24 γ = 120
     
    Space Group
    Space Group Name:    H 3
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    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) 2.3
    Resolution(Low) 40.46
    Number Reflections(All) 3608
    Number Reflections(Observed) 3608
    Percent Possible(Observed) 99.8
    Redundancy 3.0
     
    High Resolution Shell Details
    Resolution(High) 2.3
    Resolution(Low) 2.42
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.17
    Mean I Over Sigma(Observed) 4.4
    R-Sym I(Observed) 0.17
    Redundancy 3.0
    Number Unique Reflections(All) 530
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.3
    Resolution(Low) 40.45
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 3606
    Number of Reflections(R-Free) 330
    Percent Reflections(Observed) 99.78
    R-Factor(Observed) 0.2086
    R-Work 0.2007
    R-Free 0.2875
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 14.1289
    Anisotropic B[1][1] 0.07
    Anisotropic B[1][2] 0.04
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.07
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.11
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3
    Shell Resolution(Low) 2.36
    Number of Reflections(R-Free) 19
    Number of Reflections(R-Work) 257
    R-Factor(R-Work) 0.18
    R-Factor(R-Free) 0.248
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.006
    r_chiral_restr 0.105
    r_dihedral_angle_4_deg 18.08
    r_dihedral_angle_3_deg 18.288
    r_dihedral_angle_2_deg 37.796
    r_dihedral_angle_1_deg 9.017
    r_angle_refined_deg 1.655
    r_bond_refined_d 0.014
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 808
    Nucleic Acid Atoms 0
    Heterogen Atoms 4
    Solvent Atoms 98
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Marresearch
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.6.0117
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5 version: 5.6.0117
    molecular replacement Phaser version: 2.1.4
    data reduction SCALA version: 3.3.20
    data collection Mosflm