POP-OUT | CLOSE

An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4DWS
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.5
    Temperature 291.0
    Details 26% PEG 3350, 2% isopropanol, 0.1 M calcium chloride, 0.1 M HEPES pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 60.51 α = 90
    b = 210.56 β = 95.27
    c = 92.58 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2009-12-06
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type AUSTRALIAN SYNCHROTRON BEAMLINE MX2
    Wavelength List 0.95369
    Site AUSTRALIAN SYNCHROTRON
    Beamline MX2
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.8
    Resolution(Low) 105.28
    Number Reflections(All) 212127
    Number Reflections(Observed) 212127
    Percent Possible(Observed) 99.9
    Redundancy 7.6
     
    High Resolution Shell Details
    Resolution(High) 1.8
    Resolution(Low) 1.9
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.582
    Mean I Over Sigma(Observed) 1.2
    R-Sym I(Observed) 0.582
    Redundancy 7.2
    Number Unique Reflections(All) 30999
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.8
    Resolution(Low) 105.278
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 212271
    Number of Reflections(Observed) 212074
    Number of Reflections(R-Free) 10651
    Percent Reflections(Observed) 99.91
    R-Factor(All) 0.1617
    R-Factor(Observed) 0.1617
    R-Work 0.1598
    R-Free 0.199
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 14.8263
    Anisotropic B[1][1] 0.95
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.06
    Anisotropic B[2][2] -0.29
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.65
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8
    Shell Resolution(Low) 1.847
    Number of Reflections(Observed) 15683
    Number of Reflections(R-Free) 797
    Number of Reflections(R-Work) 14886
    R-Factor(R-Work) 0.212
    R-Factor(R-Free) 0.271
    Percent Reflections(Observed) 99.94
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 5.039
    r_scbond_it 3.324
    r_mcangle_it 2.056
    r_mcbond_it 1.229
    r_gen_planes_refined 0.012
    r_chiral_restr 0.161
    r_dihedral_angle_4_deg 19.161
    r_dihedral_angle_3_deg 12.499
    r_dihedral_angle_2_deg 37.158
    r_dihedral_angle_1_deg 6.428
    r_angle_refined_deg 2.004
    r_bond_refined_d 0.024
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 16574
    Nucleic Acid Atoms 0
    Heterogen Atoms 24
    Solvent Atoms 1206
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Blu-Ice
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.5.0109
     
    Software
    data extraction pdb_extract version: 3.10
    refinement REFMAC5
    molecular replacement Phaser version: 2.3.0
    data reduction SCALA version: 3.3.16