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X-RAY DIFFRACTION
Materials and Methods page
3VHH
  •   Crystallization Hide
    Crystallization Experiments
    Method vapor diffusion, sitting drop
    pH 5
    Temperature 293.0
    Details 2.5-2.7M ammonium sulfate, 0.1M sodium citrate(pH 4.0-5.0), vapor diffusion, sitting drop, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 129.97 α = 90
    b = 73.51 β = 119.64
    c = 81.47 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type RAYONIX MX225HE
    Collection Date 2010-11-18
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SPRING-8 BEAMLINE BL44XU
    Wavelength List 0.9
    Site SPRING-8
    Beamline BL44XU
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 1.0
    Resolution(High) 2.25
    Resolution(Low) 50
    Number Reflections(Observed) 31246
    Percent Possible(Observed) 100.0
     
    High Resolution Shell Details
    Resolution(High) 2.25
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.096
    Mean I Over Sigma(Observed) 7.7
    Redundancy 4.2
    Number Unique Reflections(All) 31246
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.26
    Resolution(Low) 36.76
    Number of Reflections(Observed) 29633
    Number of Reflections(R-Free) 1578
    Percent Reflections(Observed) 99.33
    R-Factor(Observed) 0.20297
    R-Work 0.19993
    R-Free 0.26042
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 31.883
    Anisotropic B[1][1] -0.02
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.09
    Anisotropic B[2][2] -0.05
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.02
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.259
    Shell Resolution(Low) 2.317
    Number of Reflections(R-Free) 96
    Number of Reflections(R-Work) 1996
    R-Factor(R-Work) 0.271
    R-Factor(R-Free) 0.319
    Percent Reflections(Observed) 92.16
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 5.115
    r_scbond_it 3.454
    r_mcangle_it 2.329
    r_mcbond_it 1.279
    r_gen_planes_refined 0.01
    r_chiral_restr 0.13
    r_dihedral_angle_4_deg 25.533
    r_dihedral_angle_3_deg 18.714
    r_dihedral_angle_2_deg 35.198
    r_dihedral_angle_1_deg 7.52
    r_angle_refined_deg 2.206
    r_bond_refined_d 0.023
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3821
    Nucleic Acid Atoms 0
    Heterogen Atoms 158
    Solvent Atoms 123
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.5.0110
     
    Software
    data extraction pdb_extract version: 3.10
    refinement REFMAC5