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An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3FQ5
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.99
    Temperature 293.0
    Details 50mM Sodium Cacodylate buffer, 10mM MnCl2, 1mM Spermine, 50% MPD, pH 6.99, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 24.61 α = 90
    b = 31.26 β = 103.64
    c = 31.96 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 293
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type MARRESEARCH
    Collection Date 2007-09-15
     
    Diffraction Radiation
    Monochromator Mirror
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 1.0
    Resolution(High) 2.8
    Resolution(Low) 15
    Number Reflections(All) 1241
    Number Reflections(Observed) 1179
    Percent Possible(Observed) 95.0
    R Merge I(Observed) 0.042
    B(Isotropic) From Wilson Plot 42.5
    Redundancy 2.88
     
    High Resolution Shell Details
    Resolution(High) 2.8
    Resolution(Low) 2.87
    Percent Possible(All) 94.8
    R Merge I(Observed) 0.129
    Mean I Over Sigma(Observed) 3.3
    R-Sym I(Observed) 0.1149
    Redundancy 3.25
    Number Unique Reflections(All) 72
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.8
    Resolution(Low) 14.71
    Number of Reflections(Observed) 1108
    Number of Reflections(R-Free) 61
    Percent Reflections(Observed) 97.01
    R-Factor(Observed) 0.16692
    R-Work 0.16485
    R-Free 0.20162
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model Isotropic
    Mean Isotropic B Value 12.018
    Anisotropic B[1][1] 0.17
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.01
    Anisotropic B[2][2] -0.15
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.03
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8
    Shell Resolution(Low) 2.87
    Number of Reflections(Observed) 72
    Number of Reflections(R-Free) 1
    Number of Reflections(R-Work) 77
    R-Factor(R-Work) 0.295
    R-Factor(R-Free) 0.202
    Percent Reflections(Observed) 95.12
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 4.896
    r_scbond_it 4.122
    r_nbd_refined 0.235
    r_gen_planes_refined 0.023
    r_chiral_restr 0.152
    r_angle_refined_deg 4.456
    r_bond_refined_d 0.031
    r_nbtor_refined 0.341
    r_xyhbond_nbd_refined 0.115
    r_symmetry_vdw_refined 0.294
    r_symmetry_hbond_refined 0.021
     
    Coordinate Error
    Luzzati ESD(Observed) 0.327
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 0
    Nucleic Acid Atoms 480
    Heterogen Atoms 2
    Solvent Atoms 12
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MAR345dtb
    Data Reduction (intensity integration) AUTOMAR
    Data Reduction (data scaling) SCALEPACK
    Structure Solution PHASER
    Structure Refinement REFMAC 5.2.0019
     
    Software
    refinement REFMAC version: 5.2.0019
    model building PHASER
    data collection MAR345dtb