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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4HVK
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 293.0
    Details 200 mM Calcium acetate; 100 mM Sodium cacodylate; 40% PEG 300 , pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 70.06 α = 90
    b = 99.27 β = 90
    c = 108.86 γ = 90
     
    Space Group
    Space Group Name:    C 2 2 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
    Collection Date 2009-11-05
     
    Diffraction Radiation
    Monochromator Diamond
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-4
    Wavelength List 0.939
    Site ESRF
    Beamline ID14-4
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.43
    Resolution(Low) 57
    Number Reflections(All) 70218
    Number Reflections(Observed) 70218
    Percent Possible(Observed) 98.3
     
    High Resolution Shell Details
    Resolution(High) 1.43
    Resolution(Low) 1.47
    Percent Possible(All) 84.4
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.43
    Resolution(Low) 57.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 70218
    Number of Reflections(Observed) 65502
    Number of Reflections(R-Free) 3477
    Percent Reflections(Observed) 98.27
    R-Factor(All) 0.1104
    R-Factor(Observed) 0.11042
    R-Work 0.1083
    R-Free 0.15067
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 16.134
    Anisotropic B[1][1] -0.92
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 1.33
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.41
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.43
    Shell Resolution(Low) 1.467
    Number of Reflections(R-Free) 210
    Number of Reflections(R-Work) 3923
    R-Factor(R-Work) 0.16
    R-Factor(R-Free) 0.22
    Percent Reflections(Observed) 83.43
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_sphericity_bonded 10.855
    r_sphericity_free 32.553
    r_bond_refined_d 0.023
    r_bond_other_d 0.002
    r_angle_refined_deg 2.225
    r_angle_other_deg 1.172
    r_dihedral_angle_1_deg 6.393
    r_dihedral_angle_2_deg 37.831
    r_dihedral_angle_3_deg 11.624
    r_dihedral_angle_4_deg 15.806
    r_chiral_restr 0.142
    r_gen_planes_refined 0.012
    r_gen_planes_other 0.005
    r_rigid_bond_restr 6.996
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2794
    Nucleic Acid Atoms 0
    Heterogen Atoms 101
    Solvent Atoms 379
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution PHASER
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building PHASER
    data collection ADSC version: Quantum