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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3RLY
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.5
    Temperature 277.15
    Details 15% PEG 8000, 20mM sodium phosphate, 175mM sodium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 70.3 α = 90
    b = 71.4 β = 100.3
    c = 72.4 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 105
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 225 mm CCD
    Details Collimating mirror
    Collection Date 2009-08-01
     
    Diffraction Radiation
    Monochromator Bartels Monochromator
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SLS BEAMLINE X06DA
    Wavelength List 1.00
    Site SLS
    Beamline X06DA
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.51
    Resolution(Low) 50
    Number Reflections(All) 55139
    Number Reflections(Observed) 55139
    Percent Possible(Observed) 99.9
    B(Isotropic) From Wilson Plot 12.89
    Redundancy 3.7
     
    High Resolution Shell Details
    Resolution(High) 1.51
    Resolution(Low) 1.54
    Percent Possible(All) 99.6
    Mean I Over Sigma(Observed) 2.7
    R-Sym I(Observed) 0.487
    Redundancy 3.5
    Number Unique Reflections(All) 2742
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.51
    Resolution(Low) 35.617
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 55377
    Number of Reflections(Observed) 52718
    Number of Reflections(R-Free) 2659
    Percent Reflections(Observed) 95.43
    R-Factor(All) 0.1555
    R-Factor(Observed) 0.1555
    R-Work 0.1547
    R-Free 0.1715
    R-Free Selection Details Random
     
    Temperature Factor Modeling
    Mean Isotropic B Value 21.1242
    Anisotropic B[1][1] 2.3278
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -3.2716
    Anisotropic B[2][2] -2.0029
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.3249
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5101
    Shell Resolution(Low) 1.5641
    Number of Reflections(R-Free) 256
    Number of Reflections(R-Work) 4539
    R-Factor(R-Work) 0.2155
    R-Factor(R-Free) 0.2405
    Percent Reflections(Observed) 87.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5641
    Shell Resolution(Low) 1.6267
    Number of Reflections(R-Free) 252
    Number of Reflections(R-Work) 4674
    R-Factor(R-Work) 0.1862
    R-Factor(R-Free) 0.2309
    Percent Reflections(Observed) 90.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.6267
    Shell Resolution(Low) 1.7007
    Number of Reflections(R-Free) 262
    Number of Reflections(R-Work) 4806
    R-Factor(R-Work) 0.1679
    R-Factor(R-Free) 0.1869
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7007
    Shell Resolution(Low) 1.7904
    Number of Reflections(R-Free) 282
    Number of Reflections(R-Work) 4968
    R-Factor(R-Work) 0.1513
    R-Factor(R-Free) 0.1647
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7904
    Shell Resolution(Low) 1.9026
    Number of Reflections(R-Free) 299
    Number of Reflections(R-Work) 4942
    R-Factor(R-Work) 0.1419
    R-Factor(R-Free) 0.1605
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9026
    Shell Resolution(Low) 2.0494
    Number of Reflections(R-Free) 249
    Number of Reflections(R-Work) 5113
    R-Factor(R-Work) 0.1397
    R-Factor(R-Free) 0.1644
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0494
    Shell Resolution(Low) 2.2556
    Number of Reflections(R-Free) 250
    Number of Reflections(R-Work) 5253
    R-Factor(R-Work) 0.144
    R-Factor(R-Free) 0.1753
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2556
    Shell Resolution(Low) 2.582
    Number of Reflections(R-Free) 273
    Number of Reflections(R-Work) 5190
    R-Factor(R-Work) 0.1529
    R-Factor(R-Free) 0.183
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.582
    Shell Resolution(Low) 3.2527
    Number of Reflections(R-Free) 271
    Number of Reflections(R-Work) 5244
    R-Factor(R-Work) 0.1641
    R-Factor(R-Free) 0.1766
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2527
    Shell Resolution(Low) 35.6265
    Number of Reflections(R-Free) 265
    Number of Reflections(R-Work) 5330
    R-Factor(R-Work) 0.149
    R-Factor(R-Free) 0.1493
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 17.741
    f_plane_restr 0.005
    f_chiral_restr 0.075
    f_angle_d 1.114
    f_bond_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2344
    Nucleic Acid Atoms 0
    Heterogen Atoms 93
    Solvent Atoms 347
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MAR345dtb
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution PHASER
    Structure Refinement PHENIX (phenix.refine: 1.6.4_486)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.6.4_486)
    model building PHASER
    data collection MAR345dtb