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X-RAY DIFFRACTION
Materials and Methods page
2VKI
  •   Crystallization Hide
    Crystallization Experiments
    pH 8.5
    Details 0.2 M LITHIUM SULPHATE, 0.1 M TRIS HYDROCHLORIDE [PH 8.5] 30 % (W/V) PEG 4000
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 34.01 α = 90
    b = 67.06 β = 90
    c = 67.8 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 IMAGE PLATE
    Type RIGAKU
    Collection Date 2004-06-30
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU MICROMAX-007
    Wavelength 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 1.8
    Resolution(Low) 25
    Number Reflections(Observed) 14950
    Percent Possible(Observed) 100.0
    R Merge I(Observed) 0.06
    Redundancy 4.5
     
    High Resolution Shell Details
    Resolution(High) 1.8
    Resolution(Low) 1.86
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.55
    Mean I Over Sigma(Observed) 2.3
    Redundancy 4.3
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.8
    Resolution(Low) 25.0
    Number of Reflections(Observed) 14309
    Number of Reflections(R-Free) 609
    Percent Reflections(Observed) 99.5
    R-Factor(Observed) 0.175
    R-Work 0.173
    R-Free 0.215
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 21.05
    Anisotropic B[1][1] 0.12
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.64
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.52
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8
    Shell Resolution(Low) 1.84
    Number of Reflections(R-Free) 45
    Number of Reflections(R-Work) 1000
    R-Factor(R-Work) 0.268
    R-Factor(R-Free) 0.348
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 4.059
    r_scbond_it 2.542
    r_mcangle_it 1.78
    r_mcbond_it 0.983
    r_nbd_refined 0.216
    r_gen_planes_other 0.011
    r_gen_planes_refined 0.01
    r_chiral_restr 0.106
    r_dihedral_angle_1_deg 7.298
    r_angle_other_deg 0.904
    r_angle_refined_deg 1.681
    r_bond_other_d 0.002
    r_bond_refined_d 0.016
    r_nbd_other 0.253
    r_nbtor_other 0.086
    r_xyhbond_nbd_refined 0.16
    r_symmetry_vdw_refined 0.19
    r_symmetry_vdw_other 0.312
    r_symmetry_hbond_refined 0.117
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1172
    Nucleic Acid Atoms 0
    Heterogen Atoms 11
    Solvent Atoms 112
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution AMORE
    Structure Refinement REFMAC 5.1.24
     
    Software
    refinement REFMAC version: 5.1.24
    model building AMORE