POP-OUT | CLOSE

An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3V4I
  •   Crystallization Hide
    Crystallization Experiments
    Method EVAPORATION
    pH 6.8
    Temperature 277.0
    Details PEG 8000, AMMONIUM SULFATE, MGCL2, GLYCEROL, SUCROSE, pH 7.2, EVAPORATION, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 90.05 α = 90
    b = 132.65 β = 98.12
    c = 138.01 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 270
    Collection Date 2010-12-01
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type CHESS BEAMLINE F1
    Wavelength List 0.918
    Site CHESS
    Beamline F1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -1.0
    Resolution(High) 2.8
    Resolution(Low) 50
    Number Reflections(Observed) 73202
    Percent Possible(Observed) 92.8
    R Merge I(Observed) 0.083
    Redundancy 3.2
     
    High Resolution Shell Details
    Resolution(High) 2.798
    Resolution(Low) 2.9
    Percent Possible(All) 85.1
    R Merge I(Observed) 0.523
    Mean I Over Sigma(Observed) 1.9
    Redundancy 2.4
    Number Unique Reflections(All) 6702
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.7983
    Resolution(Low) 45.543
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 73170
    Number of Reflections(R-Free) 2206
    Percent Reflections(Observed) 92.35
    R-Factor(Observed) 0.2296
    R-Work 0.2286
    R-Free 0.262
    R-Free Selection Details Random
     
    Temperature Factor Modeling
    Mean Isotropic B Value 63.8603
    Anisotropic B[1][1] 1.8488
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 12.8507
    Anisotropic B[2][2] 32.848
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 19.8987
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7983
    Shell Resolution(Low) 2.8983
    Number of Reflections(R-Free) 167
    Number of Reflections(R-Work) 6221
    R-Factor(R-Work) 0.365
    R-Factor(R-Free) 0.4428
    Percent Reflections(Observed) 81.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8983
    Shell Resolution(Low) 3.0143
    Number of Reflections(R-Free) 212
    Number of Reflections(R-Work) 6591
    R-Factor(R-Work) 0.3235
    R-Factor(R-Free) 0.3588
    Percent Reflections(Observed) 86.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0143
    Shell Resolution(Low) 3.1515
    Number of Reflections(R-Free) 199
    Number of Reflections(R-Work) 6736
    R-Factor(R-Work) 0.2982
    R-Factor(R-Free) 0.3326
    Percent Reflections(Observed) 88.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.1515
    Shell Resolution(Low) 3.3176
    Number of Reflections(R-Free) 222
    Number of Reflections(R-Work) 6795
    R-Factor(R-Work) 0.2797
    R-Factor(R-Free) 0.3105
    Percent Reflections(Observed) 89.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.3176
    Shell Resolution(Low) 3.5254
    Number of Reflections(R-Free) 227
    Number of Reflections(R-Work) 6970
    R-Factor(R-Work) 0.2575
    R-Factor(R-Free) 0.33
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.5254
    Shell Resolution(Low) 3.7975
    Number of Reflections(R-Free) 245
    Number of Reflections(R-Work) 7260
    R-Factor(R-Work) 0.2364
    R-Factor(R-Free) 0.2734
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.7975
    Shell Resolution(Low) 4.1794
    Number of Reflections(R-Free) 239
    Number of Reflections(R-Work) 7483
    R-Factor(R-Work) 0.2127
    R-Factor(R-Free) 0.2471
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.1794
    Shell Resolution(Low) 4.7836
    Number of Reflections(R-Free) 237
    Number of Reflections(R-Work) 7614
    R-Factor(R-Work) 0.1939
    R-Factor(R-Free) 0.2076
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.7836
    Shell Resolution(Low) 6.0246
    Number of Reflections(R-Free) 233
    Number of Reflections(R-Work) 7679
    R-Factor(R-Work) 0.2044
    R-Factor(R-Free) 0.2426
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 6.0246
    Shell Resolution(Low) 45.5495
    Number of Reflections(R-Free) 225
    Number of Reflections(R-Work) 7615
    R-Factor(R-Work) 0.2019
    R-Factor(R-Free) 0.229
    Percent Reflections(Observed) 97.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 17.771
    f_plane_restr 0.007
    f_chiral_restr 0.105
    f_angle_d 1.38
    f_bond_d 0.012
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 15822
    Nucleic Acid Atoms 1810
    Heterogen Atoms 64
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) HKL
    Data Reduction (data scaling) HKL
    Structure Solution Molrep
    Structure Refinement PHENIX (phenix.refine: 1.7.1_743)
     
    Software
    data extraction pdb_extract version: 3.10
    refinement phenix
    data reduction HKL