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X-RAY DIFFRACTION
Materials and Methods page
3NJ2
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.1
    Temperature 293.0
    Details 0.2 M Ammonium phosphate monobasic, 0.1 M Tris pH 8.5, 50% v/v (+/-)-2-Methyl-2,4-pentanediol, protein in 100 mM NaCl, 20 mM Tris, 1 mM DTT, pH 7.1. Protein 2 mg/mL, Mix 1.5 uL of protein and precipatant, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 59.08 α = 90
    b = 44.57 β = 111.01
    c = 67.72 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Collection Date 2008-10-20
     
    Diffraction Radiation
    Monochromator SI(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X29A
    Wavelength List 0.9792
    Site NSLS
    Beamline X29A
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.59
    Resolution(Low) 33
    Number Reflections(All) 38536
    Number Reflections(Observed) 38536
    Percent Possible(Observed) 91.692
    B(Isotropic) From Wilson Plot 19.938
     
    High Resolution Shell Details
    Resolution(High) 1.593
    Resolution(Low) 1.634
    Percent Possible(All) 75.34
    Number Unique Reflections(All) 2312
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.59
    Resolution(Low) 33.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 38536
    Number of Reflections(Observed) 38536
    Number of Reflections(R-Free) 2057
    Percent Reflections(Observed) 91.69
    R-Factor(Observed) 0.2123
    R-Work 0.21
    R-Free 0.25452
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 21.764
    Anisotropic B[1][1] 1.08
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.72
    Anisotropic B[2][2] -0.53
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.04
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.59
    Shell Resolution(Low) 1.634
    Number of Reflections(R-Free) 111
    Number of Reflections(R-Work) 2312
    R-Factor(R-Work) 0.326
    R-Factor(R-Free) 0.404
    Percent Reflections(Observed) 75.34
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 5.562
    r_scbond_it 3.548
    r_mcangle_it 2.336
    r_mcbond_it 1.423
    r_gen_planes_refined 0.012
    r_chiral_restr 0.143
    r_dihedral_angle_4_deg 18.719
    r_dihedral_angle_3_deg 14.004
    r_dihedral_angle_2_deg 28.354
    r_dihedral_angle_1_deg 6.349
    r_angle_refined_deg 2.19
    r_bond_refined_d 0.026
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2436
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 300
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution Molrep
    Structure Refinement REFMAC 5.5.0109
     
    Software
    refinement REFMAC version: 5.5.0109
    model building Molrep
    data collection ADSC version: Quantum