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X-RAY DIFFRACTION
Materials and Methods page
2VI4
  •   Crystallization Hide
    Crystallization Experiments
    pH 7.1
    Details MICROBATCH METHOD; PROTEIN AT 45 MG/ML IN 10MM SODIUM PHOSPHATE WITH 0.25M SODIUM DL-TARTRATE (PH=7.1) AND 10% (V/V) GLYCEROL; CRYSTALS GROWN AT 6 C
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 57.92 α = 90
    b = 57.92 β = 90
    c = 149.95 γ = 90
     
    Space Group
    Space Group Name:    P 41 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
    Diffrn ID 2
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC
    Detector IMAGE PLATE
    Type MARRESEARCH
    Collection Date 2007-09-20
     
    Diffraction Radiation
    Monochromator BRAGG-MONO
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X6A
    Wavelength 0.91
    Site NSLS
    Beamline X6A
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID15B
    Wavelength 0.2214
    Site ESRF
    Beamline ID15B
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 1.1
    Resolution(Low) 20
    Number Reflections(Observed) 104165
    Percent Possible(Observed) 99.7
    R Merge I(Observed) 0.06
    Redundancy 8.2
     
    High Resolution Shell Details
    Resolution(High) 1.1
    Resolution(Low) 1.12
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.63
    Mean I Over Sigma(Observed) 2.1
    Redundancy 8.5
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.1
    Resolution(Low) 19.75
    Number of Reflections(Observed) 98770
    Number of Reflections(R-Free) 5196
    Percent Reflections(Observed) 100.0
    R-Factor(Observed) 0.126
    R-Work 0.125
    R-Free 0.14
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 13.08
    Anisotropic B[1][1] 0.05
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.05
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.1
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.1
    Shell Resolution(Low) 1.13
    Number of Reflections(R-Free) 367
    Number of Reflections(R-Work) 7206
    R-Factor(R-Work) 0.162
    R-Factor(R-Free) 0.173
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.548
    r_scbond_it 2.711
    r_mcangle_it 2.15
    r_mcbond_it 1.482
    r_nbd_refined 0.216
    r_gen_planes_refined 0.009
    r_chiral_restr 0.096
    r_dihedral_angle_4_deg 14.158
    r_dihedral_angle_3_deg 11.284
    r_dihedral_angle_2_deg 36.254
    r_dihedral_angle_1_deg 6.976
    r_angle_refined_deg 1.569
    r_bond_refined_d 0.011
    r_nbtor_refined 0.315
    r_xyhbond_nbd_refined 0.14
    r_symmetry_vdw_refined 0.207
    r_symmetry_hbond_refined 0.14
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1545
    Nucleic Acid Atoms 0
    Heterogen Atoms 28
    Solvent Atoms 418
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.2.0019
     
    Software
    refinement REFMAC version: 5.2.0019
    model building MOLREP