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An Information Portal to 105025 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
2CVW
  •   Crystallization Hide
    Crystallization Experiments
    Method EVAPORATION
    pH 6.5
    Temperature 298.0
    Details PEG 3350, sodium acetate, ammonium sulfate, pH 6.5, EVAPORATION, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 107.53 α = 90
    b = 117.39 β = 90
    c = 64.83 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type RIGAKU RAXIS IV
    Collection Date 2005-04-19
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU RUH3R
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.4
    Resolution(Low) 50
    Number Reflections(All) 32305
    Number Reflections(Observed) 32305
    Percent Possible(Observed) 98.1
    R Merge I(Observed) 0.071
    Redundancy 4.7
     
    High Resolution Shell Details
    Resolution(High) 2.4
    Resolution(Low) 2.49
    Percent Possible(All) 98.8
    R Merge I(Observed) 0.42
    Mean I Over Sigma(Observed) 2.9
    R-Sym I(Observed) 0.42
    Redundancy 4.4
    Number Unique Reflections(All) 3193
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.4
    Resolution(Low) 50.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 29018
    Number of Reflections(R-Free) 3244
    Percent Reflections(Observed) 98.17
    R-Factor(Observed) 0.2104
    R-Work 0.20431
    R-Free 0.26587
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 43.66
    Anisotropic B[1][1] -2.6
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -1.65
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 4.25
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.399
    Shell Resolution(Low) 2.461
    Number of Reflections(R-Free) 253
    Number of Reflections(R-Work) 2093
    R-Factor(R-Work) 0.257
    R-Factor(R-Free) 0.313
    Percent Reflections(Observed) 98.7
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 2.888
    r_scbond_it 1.879
    r_mcangle_it 1.479
    r_mcbond_it 0.862
    r_nbd_refined 0.224
    r_gen_planes_refined 0.006
    r_chiral_restr 0.109
    r_dihedral_angle_4_deg 21.106
    r_dihedral_angle_3_deg 19.382
    r_dihedral_angle_2_deg 37.902
    r_dihedral_angle_1_deg 6.768
    r_angle_refined_deg 1.616
    r_bond_refined_d 0.014
    r_nbtor_refined 0.308
    r_xyhbond_nbd_refined 0.173
    r_symmetry_vdw_refined 0.249
    r_symmetry_hbond_refined 0.21
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 5192
    Nucleic Acid Atoms 0
    Heterogen Atoms 58
    Solvent Atoms 124
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution CNS
    Structure Refinement REFMAC 5.2.0007
     
    Software
    refinement REFMAC version: 5.2.0007