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X-RAY DIFFRACTION
Materials and Methods page
3ELE
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7
    Temperature 277.0
    Details 1.0000M LiCl, 20.0000% PEG-6000, 0.1M HEPES pH 7.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 65.56 α = 82.51
    b = 68.39 β = 79.52
    c = 98.11 γ = 75.68
     
    Space Group
    Space Group Name:    P 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 325 mm CCD
    Details Flat collimating mirror, toroid focusing mirror
    Collection Date 2008-08-10
     
    Diffraction Radiation
    Monochromator Double crystal monochromator
    Diffraction Protocol MAD
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL9-2
    Wavelength List 0.91837,0.97936,0.97917
    Site SSRL
    Beamline BL9-2
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.1
    Resolution(Low) 29.88
    Number Reflections(Observed) 92103
    Percent Possible(Observed) 97.6
    R Merge I(Observed) 0.069
    B(Isotropic) From Wilson Plot 25.239
    Redundancy 2.0
     
    High Resolution Shell Details
    Resolution(High) 2.1
    Resolution(Low) 2.15
    Percent Possible(All) 96.7
    R Merge I(Observed) 0.35
    Mean I Over Sigma(Observed) 2.1
    R-Sym I(Observed) 0.35
    Redundancy 2.0
    Number Unique Reflections(All) 6769
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MAD
    reflnsShellList 2.1
    Resolution(Low) 29.881
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 92101
    Number of Reflections(R-Free) 4610
    Percent Reflections(Observed) 97.57
    R-Factor(Observed) 0.175
    R-Work 0.173
    R-Free 0.222
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 36.74
    Anisotropic B[1][1] -1.47
    Anisotropic B[1][2] 0.48
    Anisotropic B[1][3] 0.22
    Anisotropic B[2][2] -1.69
    Anisotropic B[2][3] -1.15
    Anisotropic B[3][3] 3.14
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1
    Shell Resolution(Low) 2.155
    Number of Reflections(R-Free) 348
    Number of Reflections(R-Work) 6421
    R-Factor(R-Work) 0.22
    R-Factor(R-Free) 0.276
    Percent Reflections(Observed) 96.74
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.922
    r_scbond_it 3.038
    r_mcangle_it 1.602
    r_mcbond_other 0.163
    r_mcbond_it 0.982
    r_symmetry_hbond_refined 0.161
    r_symmetry_vdw_other 0.146
    r_symmetry_vdw_refined 0.112
    r_xyhbond_nbd_refined 0.104
    r_nbtor_other 0.072
    r_nbtor_refined 0.156
    r_nbd_other 0.137
    r_bond_refined_d 0.015
    r_bond_other_d 0.003
    r_angle_refined_deg 1.618
    r_angle_other_deg 1.312
    r_dihedral_angle_1_deg 3.871
    r_dihedral_angle_2_deg 31.234
    r_dihedral_angle_3_deg 11.051
    r_dihedral_angle_4_deg 13.839
    r_chiral_restr 0.095
    r_gen_planes_refined 0.005
    r_gen_planes_other 0.002
    r_nbd_refined 0.167
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 12432
    Nucleic Acid Atoms 0
    Heterogen Atoms 114
    Solvent Atoms 772
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution SHELX/SHARP
    Structure Refinement REFMAC 5.2.0019
     
    Software
    data extraction pdb_extract version: 3.006
    data processing SCALA version: 3.2.5
    refinement REFMAC5 version: 5.2.0019
    phasing SHELX
    refinement phenix
    validation MOLPROBITY version: 3beta29