POP-OUT | CLOSE
 
X-RAY DIFFRACTION
Materials and Methods page
3ME6
  •   Crystallization Hide
    Crystallization Experiments
    Method vapor diffusion, sitting drop
    pH 4.2
    Temperature 291.0
    Details 20% (w/v) PEG 8000, 0.2 M NaCl and 0.1 M phosphate-citrate, pH 4.2, vapor diffusion, sitting drop, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 234.49 α = 90
    b = 234.49 β = 90
    c = 57.32 γ = 120
     
    Space Group
    Space Group Name:    P 3
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 325 mm CCD
    Collection Date 2009-11-07
     
    Diffraction Radiation
    Monochromator Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL11-1
    Wavelength List 0.98
    Site SSRL
    Beamline BL11-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 3.1
    Resolution(Low) 76.75
    Number Reflections(All) 62529
    Number Reflections(Observed) 62529
    Percent Possible(Observed) 97.7
    R Merge I(Observed) 0.13
    Redundancy 4.0
     
    High Resolution Shell Details
    Resolution(High) 3.1
    Resolution(Low) 3.18
    Percent Possible(All) 98.6
    R Merge I(Observed) 0.432
    Mean I Over Sigma(Observed) 3.5
    R-Sym I(Observed) 0.432
    Redundancy 3.9
    Number Unique Reflections(All) 9259
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 3.1
    Resolution(Low) 76.75
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 62529
    Number of Reflections(Observed) 62516
    Number of Reflections(R-Free) 3169
    Percent Reflections(Observed) 97.67
    R-Factor(All) 0.181
    R-Factor(Observed) 0.181
    R-Work 0.178
    R-Free 0.234
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 42.197
    Anisotropic B[1][1] -0.06
    Anisotropic B[1][2] -0.03
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.06
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.1
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.1
    Shell Resolution(Low) 3.181
    Number of Reflections(R-Free) 214
    Number of Reflections(R-Work) 4483
    R-Factor(R-Work) 0.233
    R-Factor(R-Free) 0.296
    Percent Reflections(Observed) 97.43
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 4.267
    r_scbond_it 2.404
    r_mcangle_it 1.715
    r_mcbond_it 0.864
    r_gen_planes_refined 0.008
    r_chiral_restr 0.132
    r_dihedral_angle_4_deg 21.325
    r_dihedral_angle_3_deg 19.993
    r_dihedral_angle_2_deg 36.623
    r_dihedral_angle_1_deg 7.116
    r_angle_refined_deg 1.936
    r_bond_refined_d 0.019
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 14882
    Nucleic Acid Atoms 0
    Heterogen Atoms 256
    Solvent Atoms 132
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Blue-Ice
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.5.0072
     
    Software
    data extraction pdb_extract version: 3.100
    refinement REFMAC5
    molecular replacement Phaser version: 2.1.4
    data processing SCALA version: 3.3.9