POP-OUT | CLOSE
 
X-RAY DIFFRACTION
Materials and Methods page
2YPD
  •   Crystallization Hide
    Crystallization Experiments
    Details 13% PEG3350, 200 MM SODIUM MALONATE
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 45.72 α = 90
    b = 112.21 β = 90
    c = 165.17 γ = 90
     
    Space Group
    Space Group Name:    P 2 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector PIXEL (PILATUS 6M)
    Type DECTRIS
    Collection Date 2012-10-17
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type DIAMOND BEAMLINE I03
    Wavelength 0.9736
    Site DIAMOND
    Beamline I03
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 1.7
    Resolution(High) 2.1
    Resolution(Low) 92.82
    Number Reflections(Observed) 50717
    Percent Possible(Observed) 100.0
    R Merge I(Observed) 0.15
    Redundancy 15.6
     
    High Resolution Shell Details
    Resolution(High) 2.1
    Resolution(Low) 2.16
    Percent Possible(All) 100.0
    R Merge I(Observed) 1.04
    Mean I Over Sigma(Observed) 1.7
    Redundancy 5.3
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 2.1
    Resolution(Low) 92.82
    Number of Reflections(Observed) 48077
    Number of Reflections(R-Free) 2574
    Percent Reflections(Observed) 99.97
    R-Factor(Observed) 0.21616
    R-Work 0.2149
    R-Free 0.23986
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 32.643
    Anisotropic B[1][1] -2.49
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.68
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 3.17
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1
    Shell Resolution(Low) 2.155
    Number of Reflections(R-Free) 194
    Number of Reflections(R-Work) 3498
    R-Factor(R-Work) 0.327
    R-Factor(R-Free) 0.368
    Percent Reflections(Observed) 99.95
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.003
    r_gen_planes_refined 0.005
    r_chiral_restr 0.071
    r_dihedral_angle_4_deg 11.167
    r_dihedral_angle_3_deg 14.244
    r_dihedral_angle_2_deg 31.879
    r_dihedral_angle_1_deg 6.137
    r_angle_other_deg 0.837
    r_angle_refined_deg 1.241
    r_bond_other_d 0.003
    r_bond_refined_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 5133
    Nucleic Acid Atoms 0
    Heterogen Atoms 35
    Solvent Atoms 223
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution AUTOSHARP
    Structure Refinement REFMAC 5.7.0029
     
    Software
    refinement REFMAC version: 5.7.0029
    model building AUTOSHARP