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X-RAY DIFFRACTION
Materials and Methods page
4JNG
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 5.7
    Temperature 298.0
    Details 0.1M Bis-Tris pH5.7, 0.3M NaCl, 25% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 76.35 α = 90
    b = 85.96 β = 102.02
    c = 77.33 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 173
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Details mirrors
    Collection Date 2013-01-03
     
    Diffraction Radiation
    Monochromator Graphite
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type DIAMOND BEAMLINE I04
    Wavelength List 0.92
    Site DIAMOND
    Beamline I04
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.6
    Observed Criterion Sigma(I) 2.6
    Resolution(High) 2.12
    Resolution(Low) 37.82
    Number Reflections(All) 54454
    Number Reflections(Observed) 54303
    Percent Possible(Observed) 97.9
    R Merge I(Observed) 0.061
    B(Isotropic) From Wilson Plot 32.0
    Redundancy 4.1
     
    High Resolution Shell Details
    Resolution(High) 2.16
    Resolution(Low) 37.81
    Percent Possible(All) 99.2
    R Merge I(Observed) 0.572
    Mean I Over Sigma(Observed) 2.6
    R-Sym I(Observed) 0.65
    Redundancy 4.3
    Number Unique Reflections(All) 7984
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.12
    Resolution(Low) 37.4
    Cut-off Sigma(I) 2.0
    Number of Reflections(all) 54303
    Number of Reflections(Observed) 51526
    Number of Reflections(R-Free) 2755
    Percent Reflections(Observed) 97.7
    R-Factor(All) 0.266
    R-Factor(Observed) 0.26548
    R-Work 0.26449
    R-Free 0.28348
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 19.666
    Anisotropic B[1][1] -2.87
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.56
    Anisotropic B[2][2] -2.79
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 5.08
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.12
    Shell Resolution(Low) 2.175
    Number of Reflections(Observed) 34042
    Number of Reflections(R-Free) 207
    Number of Reflections(R-Work) 3825
    R-Factor(R-Work) 0.333
    R-Factor(R-Free) 0.349
    R-Free Error 0.012
    Percent Reflections(Observed) 99.12
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_sphericity_bonded 3.41
    r_sphericity_free 31.054
    r_bond_refined_d 0.006
    r_bond_other_d 0.002
    r_angle_refined_deg 1.303
    r_angle_other_deg 0.914
    r_dihedral_angle_1_deg 7.318
    r_dihedral_angle_2_deg 36.468
    r_dihedral_angle_3_deg 19.41
    r_dihedral_angle_4_deg 16.765
    r_chiral_restr 0.08
    r_gen_planes_refined 0.005
    r_gen_planes_other 0.001
    r_rigid_bond_restr 2.654
     
    Coordinate Error
    Luzzati ESD(Observed) 0.02
    Luzzati Sigma A(Observed) 0.2
    Luzzati Resolution Cutoff(Low) 2.16
    Luzzati ESD(R-Free Set) 0.03
    Luzzati Sigma A(R-Free Set) 0.3
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 7035
    Nucleic Acid Atoms 840
    Heterogen Atoms 0
    Solvent Atoms 163
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Imosflm
    Data Reduction (intensity integration) Scala
    Data Reduction (data scaling) SCALA
    Structure Solution Phaser
    Structure Refinement REFMAC 5.7.0029
     
    Software
    refinement REFMAC version: 5.7.0029
    model building Phaser
    data collection Imosflm