POP-OUT | CLOSE

An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4HNJ
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 4.6
    Temperature 291.0
    Details 0.2 M CaCl2, 0.1 M NaOAc, 20% V/V isopropanol, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 94.83 α = 90
    b = 94.83 β = 90
    c = 111.54 γ = 90
     
    Space Group
    Space Group Name:    P 42 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Collection Date 2006-12-21
     
    Diffraction Radiation
    Monochromator Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 22-ID
    Wavelength List 1.0
    Site APS
    Beamline 22-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 1.34
    Observed Criterion Sigma(I) 1.34
    Resolution(High) 2.9
    Resolution(Low) 50
    Number Reflections(All) 11798
    Number Reflections(Observed) 11326
    Percent Possible(Observed) 96.0
    Redundancy 21.7
     
    High Resolution Shell Details
    Resolution(High) 2.9
    Resolution(Low) 3.0
    Percent Possible(All) 68.9
    Redundancy 8.8
    Number Unique Reflections(All) 788
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.9
    Resolution(Low) 42.878
    Cut-off Sigma(F) 1.34
    Number of Reflections(all) 11788
    Number of Reflections(Observed) 11256
    Number of Reflections(R-Free) 542
    Percent Reflections(Observed) 95.49
    R-Factor(Observed) 0.2079
    R-Work 0.2057
    R-Free 0.2536
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 93.8646
    Anisotropic B[1][1] 9.0736
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 9.0736
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -18.1471
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9
    Shell Resolution(Low) 3.1956
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 2253
    R-Factor(R-Work) 0.2763
    R-Factor(R-Free) 0.3617
    Percent Reflections(Observed) 83.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.1956
    Shell Resolution(Low) 3.6577
    Number of Reflections(R-Free) 129
    Number of Reflections(R-Work) 2745
    R-Factor(R-Work) 0.19
    R-Factor(R-Free) 0.2179
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.6577
    Shell Resolution(Low) 4.6075
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2772
    R-Factor(R-Work) 0.1538
    R-Factor(R-Free) 0.2188
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.6075
    Shell Resolution(Low) 42.8829
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 2944
    R-Factor(R-Work) 0.2318
    R-Factor(R-Free) 0.2643
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 15.017
    f_plane_restr 0.002
    f_chiral_restr 0.05
    f_angle_d 0.775
    f_bond_d 0.004
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2330
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 4
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MarCCD
    Data Reduction (intensity integration) HKL
    Data Reduction (data scaling) HKL
    Structure Solution PHASER
    Structure Refinement PHENIX (phenix.refine: 1.7.3_928)
     
    Software
    data extraction pdb_extract version: 3.10
    refinement phenix
    data reduction HKL