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X-RAY DIFFRACTION
Materials and Methods page
3EJI
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8
    Temperature 279.0
    Details 44% MPD, 25 mM Potassium Phosphate, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 279K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 48.2 α = 90
    b = 48.2 β = 90
    c = 63.21 γ = 90
     
    Space Group
    Space Group Name:    P 41
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type BRUKER PROTEUM
    Details multi-layer optics
    Collection Date 2005-01-22
     
    Diffraction Radiation
    Monochromator graphite
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type OTHER
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.75
    Resolution(Low) 48.2
    Number Reflections(All) 11270
    Number Reflections(Observed) 11208
    Percent Possible(Observed) 99.4
    R Merge I(Observed) 0.0344
    B(Isotropic) From Wilson Plot 32.3
    Redundancy 5.11
     
    High Resolution Shell Details
    Resolution(High) 1.75
    Resolution(Low) 1.85
    Percent Possible(All) 96.8
    R Merge I(Observed) 0.2572
    Mean I Over Sigma(Observed) 3.75
    R-Sym I(Observed) 0.2657
    Redundancy 5.11
    Number Unique Reflections(All) 1736
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.9
    Resolution(Low) 48.22
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 9990
    Number of Reflections(R-Free) 983
    Percent Reflections(Observed) 87.21
    R-Factor(Observed) 0.209
    R-Work 0.203
    R-Free 0.272
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 26.508
    Anisotropic B[1][1] 0.18
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.18
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.37
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.901
    Shell Resolution(Low) 1.95
    Number of Reflections(R-Free) 32
    Number of Reflections(R-Work) 297
    R-Factor(R-Work) 0.243
    R-Factor(R-Free) 0.277
    Percent Reflections(Observed) 38.71
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.42
    r_scbond_it 2.267
    r_mcangle_it 1.395
    r_mcbond_it 0.883
    r_symmetry_hbond_refined 0.228
    r_bond_refined_d 0.014
    r_angle_refined_deg 1.435
    r_dihedral_angle_1_deg 6.089
    r_dihedral_angle_2_deg 33.87
    r_dihedral_angle_3_deg 16.677
    r_dihedral_angle_4_deg 19.844
    r_chiral_restr 0.099
    r_gen_planes_refined 0.005
    r_nbd_refined 0.21
    r_nbtor_refined 0.308
    r_xyhbond_nbd_refined 0.154
    r_symmetry_vdw_refined 0.206
     
    Coordinate Error
    Luzzati ESD(Observed) 0.246
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1043
    Nucleic Acid Atoms 0
    Heterogen Atoms 13
    Solvent Atoms 71
     
     
  •   Software and Computing Hide
    Computing
    Data Collection PROTEUM PLUS
    Data Reduction (intensity integration) APEXII
    Data Reduction (data scaling) SAINT
    Structure Solution PHASER
    Structure Refinement REFMAC 5.2.0019
     
    Software
    data extraction pdb_extract version: 3.006
    refinement REFMAC5
    molecular replacement Phaser
    data processing SAINT