POP-OUT | CLOSE

An Information Portal to 105906 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4IPN
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 5.6
    Temperature 289.0
    Details 15% polyethylene glycol 5000MME, 0.1 M sodium citrate tribasic dehydrate, pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 289K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 184.03 α = 90
    b = 66.65 β = 136.33
    c = 133.35 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 225 mm CCD
    Collection Date 2012-05-26
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRF BEAMLINE BL17U
    Wavelength List 0.97892
    Site SSRF
    Beamline BL17U
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.4
    Resolution(Low) 50
    Number Reflections(All) 43252
    Number Reflections(Observed) 42473
    Percent Possible(Observed) 98.2
     
    High Resolution Shell Details
    Resolution(High) 2.4
    Resolution(Low) 2.54
    Percent Possible(All) 94.6
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.411
    Resolution(Low) 45.954
    Cut-off Sigma(F) 1.34
    Number of Reflections(all) 43356
    Number of Reflections(Observed) 42398
    Number of Reflections(R-Free) 2143
    Percent Reflections(Observed) 97.79
    R-Factor(Observed) 0.1784
    R-Work 0.1745
    R-Free 0.251
     
    Temperature Factor Modeling
    Anisotropic B[1][1] -22.9123
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -3.3355
    Anisotropic B[2][2] 27.9526
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -5.0403
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.411
    Shell Resolution(Low) 2.4972
    Number of Reflections(R-Free) 198
    Number of Reflections(R-Work) 3771
    R-Factor(R-Work) 0.2158
    R-Factor(R-Free) 0.3057
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4972
    Shell Resolution(Low) 2.5972
    Number of Reflections(R-Free) 212
    Number of Reflections(R-Work) 3991
    R-Factor(R-Work) 0.2245
    R-Factor(R-Free) 0.3905
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5972
    Shell Resolution(Low) 2.7154
    Number of Reflections(R-Free) 204
    Number of Reflections(R-Work) 4106
    R-Factor(R-Work) 0.2215
    R-Factor(R-Free) 0.2867
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7154
    Shell Resolution(Low) 2.8585
    Number of Reflections(R-Free) 219
    Number of Reflections(R-Work) 4027
    R-Factor(R-Work) 0.198
    R-Factor(R-Free) 0.2978
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8585
    Shell Resolution(Low) 3.0376
    Number of Reflections(R-Free) 194
    Number of Reflections(R-Work) 4131
    R-Factor(R-Work) 0.1924
    R-Factor(R-Free) 0.2593
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0376
    Shell Resolution(Low) 3.2721
    Number of Reflections(R-Free) 213
    Number of Reflections(R-Work) 4096
    R-Factor(R-Work) 0.1942
    R-Factor(R-Free) 0.2772
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2721
    Shell Resolution(Low) 3.6012
    Number of Reflections(R-Free) 210
    Number of Reflections(R-Work) 4106
    R-Factor(R-Work) 0.1945
    R-Factor(R-Free) 0.2702
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.6012
    Shell Resolution(Low) 4.1221
    Number of Reflections(R-Free) 237
    Number of Reflections(R-Work) 4082
    R-Factor(R-Work) 0.1623
    R-Factor(R-Free) 0.2444
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.1221
    Shell Resolution(Low) 5.1922
    Number of Reflections(R-Free) 247
    Number of Reflections(R-Work) 4082
    R-Factor(R-Work) 0.1278
    R-Factor(R-Free) 0.1791
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.1922
    Shell Resolution(Low) 45.954
    Number of Reflections(R-Free) 209
    Number of Reflections(R-Work) 3863
    R-Factor(R-Work) 0.1626
    R-Factor(R-Free) 0.2375
    Percent Reflections(Observed) 91.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.005
    f_chiral_restr 0.083
    f_dihedral_angle_d 15.442
    f_angle_d 1.143
    f_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 7522
    Nucleic Acid Atoms 0
    Heterogen Atoms 54
    Solvent Atoms 202
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALA
    Structure Solution AMoRE
    Structure Refinement PHENIX (phenix.refine: 1.7.1_743)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.7.1_743)
    model building AMoRE
    data collection ADSC version: Quantum