POP-OUT | CLOSE

An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3MVR
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 6.5
    Temperature 291.0
    Details 14.4 % (w/v) PEG 8000, 0.08M cacodylate pH 6.5, 0.6M calcium acetate, 20% glycerol, VAPOR DIFFUSION, SITTING DROP, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 91.47 α = 90
    b = 91.47 β = 90
    c = 150.4 γ = 120
     
    Space Group
    Space Group Name:    P 31
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2010-02-21
     
    Diffraction Radiation
    Monochromator Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL7-1
    Wavelength List 0.97
    Site SSRL
    Beamline BL7-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.76
    Resolution(Low) 150
    Number Reflections(All) 138705
    Number Reflections(Observed) 135654
    Percent Possible(Observed) 97.9
    R Merge I(Observed) 0.06
    B(Isotropic) From Wilson Plot 26.276
    Redundancy 4.7
     
    High Resolution Shell Details
    Resolution(High) 1.764
    Resolution(Low) 1.86
    Percent Possible(All) 96.8
    R Merge I(Observed) 0.34
    Mean I Over Sigma(Observed) 2.2
    R-Sym I(Observed) 0.34
    Redundancy 4.5
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.76
    Resolution(Low) 150.0
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 131683
    Number of Reflections(Observed) 128826
    Number of Reflections(R-Free) 6796
    Percent Reflections(Observed) 97.83
    R-Factor(All) 0.19753
    R-Factor(Observed) 0.19753
    R-Work 0.19617
    R-Free 0.22368
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 26.276
    Anisotropic B[1][1] 0.34
    Anisotropic B[1][2] 0.17
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.34
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.51
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.764
    Shell Resolution(Low) 1.81
    Number of Reflections(Observed) 9361
    Number of Reflections(R-Free) 520
    Number of Reflections(R-Work) 9361
    R-Factor(R-Work) 0.273
    R-Factor(R-Free) 0.316
    Percent Reflections(Observed) 96.96
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.82
    r_scbond_it 2.289
    r_mcangle_it 1.546
    r_mcbond_it 0.824
    r_gen_planes_refined 0.007
    r_chiral_restr 0.096
    r_dihedral_angle_4_deg 19.875
    r_dihedral_angle_3_deg 13.976
    r_dihedral_angle_2_deg 31.386
    r_dihedral_angle_1_deg 5.671
    r_angle_refined_deg 1.443
    r_bond_refined_d 0.013
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 7424
    Nucleic Acid Atoms 0
    Heterogen Atoms 222
    Solvent Atoms 729
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Blu-Ice
    Data Reduction (intensity integration) iMOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.5.0102
     
    Software
    refinement REFMAC version: 5.5.0102
    model building PHASER
    data collection Blu-Ice