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X-RAY DIFFRACTION
Materials and Methods page
2NY6
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 5.6
    Temperature 298.0
    Details 8.3% PEG 8000, 7.4% MPD, 100 mM Na Citrate , pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 72.31 α = 90
    b = 87.02 β = 90
    c = 196.08 γ = 90
     
    Space Group
    Space Group Name:    P 2 2 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Collection Date 2005-04-18
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 22-ID
    Wavelength 1.0000
    Site APS
    Beamline 22-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.8
    Resolution(Low) 50
    Number Reflections(All) 30838
    Number Reflections(Observed) 28525
    Percent Possible(Observed) 92.5
    R Merge I(Observed) 0.151
    Redundancy 3.4
     
    High Resolution Shell Details
    Resolution(High) 2.8
    Resolution(Low) 2.9
    Percent Possible(All) 65.0
    R Merge I(Observed) 0.581
    Redundancy 2.6
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.8
    Resolution(Low) 42.37
    Number of Reflections(all) 31422
    Number of Reflections(Observed) 23560
    Number of Reflections(R-Free) 1188
    Percent Reflections(Observed) 78.76
    R-Factor(Observed) 0.1959
    R-Work 0.19199
    R-Free 0.27577
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 51.499
    Anisotropic B[1][1] -4.3
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 2.12
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 2.18
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8
    Shell Resolution(Low) 2.868
    Number of Reflections(R-Free) 33
    Number of Reflections(R-Work) 633
    R-Factor(R-Work) 0.33
    R-Factor(R-Free) 0.525
    Percent Reflections(Observed) 29.44
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 1.962
    r_scbond_it 1.245
    r_mcangle_it 2.281
    r_mcbond_it 1.336
    r_nbd_refined 0.302
    r_gen_planes_refined 0.009
    r_chiral_restr 0.079
    r_dihedral_angle_4_deg 14.507
    r_dihedral_angle_3_deg 16.702
    r_dihedral_angle_2_deg 32.956
    r_dihedral_angle_1_deg 5.283
    r_angle_refined_deg 1.032
    r_bond_refined_d 0.008
    r_nbtor_refined 0.341
    r_xyhbond_nbd_refined 0.278
    r_symmetry_vdw_refined 0.31
    r_symmetry_hbond_refined 0.258
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 7082
    Nucleic Acid Atoms 0
    Heterogen Atoms 135
    Solvent Atoms 115
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution CNS
    Structure Refinement REFMAC 5.2.0005
     
    Software
    data extraction pdb_extract version: 2.000
    refinement REFMAC5 version: 5.2.0005
    data processing HKL