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An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4DLK
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 298.0
    Details 0.1M MES, 5mM DTT, 9% glycerol, 9% PEG6000, 100 mM ATP and 10mM Ca(NO3)2. , pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 57.37 α = 90
    b = 84.48 β = 90
    c = 167.27 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Collection Date 2011-04-15
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 22-ID
    Wavelength List 1.00
    Site APS
    Beamline 22-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) -3.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.02
    Resolution(Low) 20
    Number Reflections(All) 52033
    Number Reflections(Observed) 52033
    Percent Possible(Observed) 95.55
    R Merge I(Observed) 0.075
    B(Isotropic) From Wilson Plot 21.43
    Redundancy 4.5
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.02
    Resolution(Low) 19.99
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 52033
    Number of Reflections(Observed) 51988
    Number of Reflections(R-Free) 2627
    Percent Reflections(Observed) 95.55
    R-Factor(Observed) 0.1995
    R-Work 0.1976
    R-Free 0.2354
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 24.2748
    Anisotropic B[1][1] 0.0
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.0
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.0
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.017
    Shell Resolution(Low) 2.069
    Number of Reflections(R-Free) 96
    Number of Reflections(R-Work) 1932
    R-Factor(R-Work) 0.262
    R-Factor(R-Free) 0.292
    Percent Reflections(Observed) 53.28
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.004
    r_chiral_restr 0.067
    r_dihedral_angle_4_deg 9.394
    r_dihedral_angle_3_deg 13.357
    r_dihedral_angle_2_deg 38.986
    r_dihedral_angle_1_deg 5.299
    r_angle_refined_deg 1.149
    r_bond_refined_d 0.006
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 5926
    Nucleic Acid Atoms 0
    Heterogen Atoms 134
    Solvent Atoms 308
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) refmac
    Data Reduction (data scaling) XSCALE
    Structure Solution PHASER
    Structure Refinement REFMAC 5.6.0117
     
    Software
    data extraction pdb_extract version: 3.10
    refinement REFMAC5 version: 5.6.0117
    molecular replacement Phaser
    data reduction Xscale